Citrus Sinensis ID: 022131

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300--
Protein Sequence
MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR
Secondary Structure (PSIPRED)
cHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHccc
Coil and Loop (DISEMBL)
mytsliygWCKINRIDMAERFLGEMiergvepnvVTYNVLLNGVcrraslhpserFEKTIRNAEKVFDEmrvrgiepdvtSFSIVLHVYsrahqpqlsldklnfmkekgicptvaTYSSVVKCLCSCGRIEDAEELLGEMVrngvcpsaetyncffkeyrgrkdanGAMKLYRQMKedglcvpnmhSYNILIGMFMALNRMDMVREIWNdvkgsglgpdldsYTMLIHGLCEKQKWKEACQYFVEMIekgllpqkvtfETLYRGLIQSDMLRTWRRLKKKLDeesitfgsefqnyhfkpyrr
Flexible Loop (DISEMBL)
mytsliygwckiNRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRraslhpserfekTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIekgllpqkVTFETLYRGLIQSDMLRTWRRLKKKldeesitfgsefqnyhfkpyrr
Low Complexity Region (SEG)
MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR
Disordered region (IsUnstruct)
**TSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSD*********************************
Disordered Region (DISOPRED)
MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR
Disordered Region (DISEMBL)
MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR
Disordered Region (DISPRO)
MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	302	2.2.26 [Sep-21-2011]
Q0WP85	509	Pentatricopeptide repeat-	yes	no	0.996	0.591	0.735	1e-133
Q9SSR6	523	Pentatricopeptide repeat-	yes	no	0.841	0.485	0.319	6e-38
Q9C8T7	559	Pentatricopeptide repeat-	no	no	0.907	0.490	0.298	7e-36
Q9S7R4	482	Pentatricopeptide repeat-	no	no	0.841	0.526	0.302	4e-35
Q9LN22	537	Pentatricopeptide repeat-	no	no	0.910	0.512	0.292	2e-34
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.907	0.432	0.287	3e-34
Q9LZP3	599	Pentatricopeptide repeat-	no	no	0.791	0.398	0.288	2e-33
Q9LEQ7	598	Pentatricopeptide repeat-	no	no	0.791	0.399	0.292	3e-33
Q3EAF8	599	Pentatricopeptide repeat-	no	no	0.791	0.398	0.292	3e-33
Q9CAM8	629	Pentatricopeptide repeat-	no	no	0.847	0.406	0.280	6e-33

>sp|Q0WP85|PP150_ARATH Pentatricopeptide repeat-containing protein At2g13420, mitochondrial OS=Arabidopsis thaliana GN=At2g13420 PE=2 SV=1

 Score =  475 bits (1222), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 222/302 (73%), Positives = 263/302 (87%), Gaps = 1/302 (0%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           +YT LI GWCK+ RIDMAE+FL EMIE G+EPNVVTYNVLLNG+CR ASLHP ERFE+ +
Sbjct: 209 VYTILIAGWCKLRRIDMAEKFLVEMIESGIEPNVVTYNVLLNGICRTASLHPEERFERNV 268

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           RNAEKVFDEMR RGIEPDVTSFSIVLH+YSRAH+ +L+LDK+  MK KGI PT+ TY+SV
Sbjct: 269 RNAEKVFDEMRQRGIEPDVTSFSIVLHMYSRAHKAELTLDKMKLMKAKGISPTIETYTSV 328

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           VKCLCSCGR+E+AEELL  MV +G+ PS+ TYNCFFKEY+GRKDANGAM LYR+MK +GL
Sbjct: 329 VKCLCSCGRLEEAEELLETMVESGISPSSATYNCFFKEYKGRKDANGAMNLYRKMK-NGL 387

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C P+  +YN+L+G F+ L +M+ V+EIW+D+K S  GPDLDSYT L+HGLC K+KWKEAC
Sbjct: 388 CKPSTQTYNVLLGTFINLGKMETVKEIWDDLKASETGPDLDSYTSLVHGLCSKEKWKEAC 447

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
            YFVEMIE+G LPQK+TFETLY+GLIQS+ +RTWRRLKKKLDEESITFGSEFQ Y F+PY
Sbjct: 448 GYFVEMIERGFLPQKLTFETLYKGLIQSNKMRTWRRLKKKLDEESITFGSEFQRYPFEPY 507

Query: 301 RR 302
           +R
Sbjct: 508 KR 509

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SSR6|PPR78_ARATH Pentatricopeptide repeat-containing protein At1g52640, mitochondrial OS=Arabidopsis thaliana GN=At1g52640 PE=2 SV=1

 Score =  157 bits (398), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 85/266 (31%), Positives = 138/266 (51%), Gaps = 12/266 (4%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           Y+ L+ GW +I     A +   EM+ER    +++ YN LL+ +C+             + 
Sbjct: 211 YSILVRGWARIRDASGARKVFDEMLERNCVVDLLAYNALLDALCKSGD----------VD 260

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
              K+F EM   G++PD  SF+I +H Y  A     +   L+ MK   + P V T++ ++
Sbjct: 261 GGYKMFQEMGNLGLKPDAYSFAIFIHAYCDAGDVHSAYKVLDRMKRYDLVPNVYTFNHII 320

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
           K LC   +++DA  LL EM++ G  P   TYN     +    + N A KL  +M     C
Sbjct: 321 KTLCKNEKVDDAYLLLDEMIQKGANPDTWTYNSIMAYHCDHCEVNRATKLLSRMDRTK-C 379

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ-KWKEAC 240
           +P+ H+YN+++ + + + R D   EIW  +      P + +YT++IHGL  K+ K +EAC
Sbjct: 380 LPDRHTYNMVLKLLIRIGRFDRATEIWEGMSERKFYPTVATYTVMIHGLVRKKGKLEEAC 439

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLI 266
           +YF  MI++G+ P   T E L   L+
Sbjct: 440 RYFEMMIDEGIPPYSTTVEMLRNRLV 465

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T7|PP101_ARATH Pentatricopeptide repeat-containing protein At1g63330 OS=Arabidopsis thaliana GN=At1g63330 PE=2 SV=2

 Score =  151 bits (381), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 85/285 (29%), Positives = 148/285 (51%), Gaps = 11/285 (3%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           +T+LI+G    N+   A   +  M++RG +PN+VTY V++NG+C+R            I 
Sbjct: 118 FTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGD----------ID 167

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
            A  + ++M    IE DV  F+ ++    +      +L+    M+ KGI P V TYSS++
Sbjct: 168 LAFNLLNKMEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLI 227

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
            CLCS GR  DA +LL +M+   + P+  T+N     +        A KL+  M +  + 
Sbjct: 228 SCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLHDDMIKRSI- 286

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
            P++ +YN LI  F   +R+D  ++++  +      PDLD+Y  LI G C+ ++ ++  +
Sbjct: 287 DPDIFTYNSLINGFCMHDRLDKAKQMFEFMVSKDCFPDLDTYNTLIKGFCKSKRVEDGTE 346

Query: 242 YFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI 286
            F EM  +GL+   VT+ TL +GL         +++ K++  + +
Sbjct: 347 LFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGV 391

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7R4|PP125_ARATH Pentatricopeptide repeat-containing protein At1g74900, mitochondrial OS=Arabidopsis thaliana GN=OTP43 PE=2 SV=1

 Score =  149 bits (375), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 81/268 (30%), Positives = 147/268 (54%), Gaps = 14/268 (5%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           Y  ++ GWC I R   A   L EM+ERG+ PN+ TYN +L G  R             IR
Sbjct: 198 YNVILNGWCLIKRTPKALEVLKEMVERGINPNLTTYNTMLKGFFRAGQ----------IR 247

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
           +A + F EM+ R  E DV +++ V+H +  A + + + +  + M  +G+ P+VATY++++
Sbjct: 248 HAWEFFLEMKKRDCEIDVVTYTTVVHGFGVAGEIKRARNVFDEMIREGVLPSVATYNAMI 307

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
           + LC    +E+A  +  EMVR G  P+  TYN   +      + +   +L ++M+ +G C
Sbjct: 308 QVLCKKDNVENAVVMFEEMVRRGYEPNVTTYNVLIRGLFHAGEFSRGEELMQRMENEG-C 366

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE--- 238
            PN  +YN++I  +   + ++    ++  +      P+LD+Y +LI G+  +++ ++   
Sbjct: 367 EPNFQTYNMMIRYYSECSEVEKALGLFEKMGSGDCLPNLDTYNILISGMFVRKRSEDMVV 426

Query: 239 ACQYFVEMIEKGLLPQKVTFETLYRGLI 266
           A +  +EM+E+G +P+K TF  +  GL+
Sbjct: 427 AGKLLLEMVERGFIPRKFTFNRVLNGLL 454

Required for the trans-splicing of intron 1 of the mitochondrial nad1 transcript encoding the ND1 subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LN22|PPR54_ARATH Pentatricopeptide repeat-containing protein At1g20300, mitochondrial OS=Arabidopsis thaliana GN=At1g20300 PE=2 SV=1

 Score =  146 bits (368), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 84/287 (29%), Positives = 151/287 (52%), Gaps = 12/287 (4%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           +YT+L+ GWC+   I  AE+   EM   G+EPNV TY+++++ +CR             I
Sbjct: 257 VYTNLVRGWCRAGEISEAEKVFKEMKLAGIEPNVYTYSIVIDALCRCGQ----------I 306

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
             A  VF +M   G  P+  +F+ ++ V+ +A + +  L   N MK+ G  P   TY+ +
Sbjct: 307 SRAHDVFADMLDSGCAPNAITFNNLMRVHVKAGRTEKVLQVYNQMKKLGCEPDTITYNFL 366

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           ++  C    +E+A ++L  M++     +A T+N  F+    ++D NGA ++Y +M E   
Sbjct: 367 IEAHCRDENLENAVKVLNTMIKKKCEVNASTFNTIFRYIEKKRDVNGAHRMYSKMME-AK 425

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C PN  +YNIL+ MF+     DMV ++  ++    + P++++Y +L+   C    W  A 
Sbjct: 426 CEPNTVTYNILMRMFVGSKSTDMVLKMKKEMDDKEVEPNVNTYRLLVTMFCGMGHWNNAY 485

Query: 241 QYFVEMI-EKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI 286
           + F EM+ EK L P    +E +   L ++  L+    L +K+ ++ +
Sbjct: 486 KLFKEMVEEKCLTPSLSLYEMVLAQLRRAGQLKKHEELVEKMIQKGL 532

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD8|PPR90_ARATH Pentatricopeptide repeat-containing protein At1g62590 OS=Arabidopsis thaliana GN=At1g62590 PE=2 SV=1

 Score =  145 bits (367), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 82/285 (28%), Positives = 146/285 (51%), Gaps = 11/285 (3%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           +T+LI+G    N+   A   +  M++RG +PN+VTY V++NG+C+R              
Sbjct: 193 FTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDTDL--------- 243

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
            A  + ++M    IE DV  F+ ++    +      +L+    M+ KGI P V TYSS++
Sbjct: 244 -ALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLI 302

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
            CLCS GR  DA +LL +M+   + P+  T+N     +        A KLY  M +  + 
Sbjct: 303 SCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSI- 361

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
            P++ +YN L+  F   +R+D  ++++  +      PD+ +Y  LI G C+ ++ ++  +
Sbjct: 362 DPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTE 421

Query: 242 YFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI 286
            F EM  +GL+   VT+ TL +GL         +++ K++  + +
Sbjct: 422 LFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGV 466

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZP3|PP293_ARATH Pentatricopeptide repeat-containing protein At3g62470, mitochondrial OS=Arabidopsis thaliana GN=At3g62470 PE=2 SV=1

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 72/250 (28%), Positives = 141/250 (56%), Gaps = 11/250 (4%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           YT L+ GWC++  +  A R   +MI++G++P++V +NV+L G+ R           +   
Sbjct: 301 YTVLLNGWCRVRNLIEAARIWNDMIDQGLKPDIVAHNVMLEGLLR----------SRKKS 350

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
           +A K+F  M+ +G  P+V S++I++  + +    + +++  + M + G+ P  A Y+ ++
Sbjct: 351 DAIKLFHVMKSKGPCPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLI 410

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
               +  +++   ELL EM   G  P  +TYN   K    +K    A ++Y +M ++ + 
Sbjct: 411 TGFGTQKKLDTVYELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHATRIYNKMIQNEI- 469

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
            P++H++N+++  +      +M R +W ++   G+ PD +SYT+LI GL  + K +EAC+
Sbjct: 470 EPSIHTFNMIMKSYFMARNYEMGRAVWEEMIKKGICPDDNSYTVLIRGLIGEGKSREACR 529

Query: 242 YFVEMIEKGL 251
           Y  EM++KG+
Sbjct: 530 YLEEMLDKGM 539

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LEQ7|PP382_ARATH Pentatricopeptide repeat-containing protein At5g14820, mitochondrial OS=Arabidopsis thaliana GN=At5g14820 PE=2 SV=1

 Score =  142 bits (359), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 73/250 (29%), Positives = 142/250 (56%), Gaps = 11/250 (4%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           YT L+ GWC++  +  A R   +MI+ G++P++V +NV+L G+ R  S+  S        
Sbjct: 300 YTVLLNGWCRVRNLIEAARIWNDMIDHGLKPDIVAHNVMLEGLLR--SMKKS-------- 349

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
           +A K+F  M+ +G  P+V S++I++  + +    + +++  + M + G+ P  A Y+ ++
Sbjct: 350 DAIKLFHVMKSKGPCPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLI 409

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
               +  +++   ELL EM   G  P  +TYN   K    +K      ++Y +M ++ + 
Sbjct: 410 TGFGTQKKLDTVYELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEI- 468

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
            P++H++N+++  +      +M R +W+++   G+ PD +SYT+LI GL  + K +EAC+
Sbjct: 469 EPSIHTFNMIMKSYFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACR 528

Query: 242 YFVEMIEKGL 251
           Y  EM++KG+
Sbjct: 529 YLEEMLDKGM 538

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EAF8|PP294_ARATH Pentatricopeptide repeat-containing protein At3g62540, mitochondrial OS=Arabidopsis thaliana GN=At3g62540 PE=2 SV=1

 Score =  142 bits (359), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 73/250 (29%), Positives = 142/250 (56%), Gaps = 11/250 (4%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           YT L+ GWC++  +  A R   +MI+ G++P++V +NV+L G+ R  S+  S        
Sbjct: 301 YTVLLNGWCRVRNLIEAARIWNDMIDHGLKPDIVAHNVMLEGLLR--SMKKS-------- 350

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
           +A K+F  M+ +G  P+V S++I++  + +    + +++  + M + G+ P  A Y+ ++
Sbjct: 351 DAIKLFHVMKSKGPCPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLI 410

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
               +  +++   ELL EM   G  P  +TYN   K    +K      ++Y +M ++ + 
Sbjct: 411 TGFGTQKKLDTVYELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEI- 469

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
            P++H++N+++  +      +M R +W+++   G+ PD +SYT+LI GL  + K +EAC+
Sbjct: 470 EPSIHTFNMIMKSYFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACR 529

Query: 242 YFVEMIEKGL 251
           Y  EM++KG+
Sbjct: 530 YLEEMLDKGM 539

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAM8|PP100_ARATH Pentatricopeptide repeat-containing protein At1g63150 OS=Arabidopsis thaliana GN=At1g63150 PE=2 SV=1

 Score =  141 bits (356), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 75/267 (28%), Positives = 143/267 (53%), Gaps = 11/267 (4%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           +T+LI+G    N+   A   + +M++RG +P++VTY  ++NG+C+R            I 
Sbjct: 191 FTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGD----------ID 240

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
            A  + ++M    I+ +V  F+ ++    +    ++++D    M+ KGI P V TY+S++
Sbjct: 241 LALNLLNKMEAARIKANVVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIRPNVVTYNSLI 300

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
            CLC+ GR  DA  LL  M+   + P+  T+N     +        A KL+ +M +  + 
Sbjct: 301 NCLCNYGRWSDASRLLSNMLEKKINPNVVTFNALIDAFFKEGKLVEAEKLHEEMIQRSI- 359

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
            P+  +YN+LI  F   NR+D  ++++  +      P++ +Y  LI+G C+ ++ ++  +
Sbjct: 360 DPDTITYNLLINGFCMHNRLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCKCKRVEDGVE 419

Query: 242 YFVEMIEKGLLPQKVTFETLYRGLIQS 268
            F EM ++GL+   VT+ T+ +G  Q+
Sbjct: 420 LFREMSQRGLVGNTVTYTTIIQGFFQA 446

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	302
225431703	525	PREDICTED: pentatricopeptide repeat-cont	0.903	0.52	0.788	1e-149
147767583	525	hypothetical protein VITISV_039678 [Viti	0.903	0.52	0.781	1e-147
224081016	548	predicted protein [Populus trichocarpa]	0.950	0.523	0.811	1e-146
357455845	503	Pentatricopeptide repeat-containing prot	0.864	0.518	0.768	1e-143
255542990	511	pentatricopeptide repeat-containing prot	0.910	0.538	0.758	1e-141
449457341	506	PREDICTED: pentatricopeptide repeat-cont	0.903	0.539	0.754	1e-141
356499253	510	PREDICTED: pentatricopeptide repeat-cont	0.867	0.513	0.738	1e-137
122236160	509	RecName: Full=Pentatricopeptide repeat-c	0.996	0.591	0.735	1e-131
242071011	528	hypothetical protein SORBIDRAFT_05g01805	1.0	0.571	0.673	1e-128
125561327	511	hypothetical protein OsI_29018 [Oryza sa	1.0	0.590	0.666	1e-128

>gi|225431703|ref|XP_002264696.1| PREDICTED: pentatricopeptide repeat-containing protein At2g13420, mitochondrial [Vitis vinifera] gi|296088528|emb|CBI37519.3| unnamed protein product [Vitis vinifera]

 Score =  533 bits (1374), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 238/302 (78%), Positives = 280/302 (92%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCKINR+ +AER LGEM+ERG+E NVVTYNVLLNG+CRRASLHP +RFE+TI
Sbjct: 224 MYTILIYGWCKINRVSIAERLLGEMVERGIEANVVTYNVLLNGICRRASLHPDDRFERTI 283

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           R+AEKV DEMR +GIEPDVTS+SIV+HVYSRAH+P+L+LDKL  MK+KGI PTVATY+SV
Sbjct: 284 RDAEKVLDEMRQKGIEPDVTSYSIVIHVYSRAHKPELTLDKLRMMKDKGIWPTVATYTSV 343

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           VKCLCSCGR+EDAEEL+ +MV++GV PSA TYNCFFKEYRGRKD++ A++LYR+MKE+  
Sbjct: 344 VKCLCSCGRLEDAEELVSDMVKDGVSPSAATYNCFFKEYRGRKDSDNALRLYRKMKEEYS 403

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C+P+MH+YNIL+GMF+ LNRM++V+EIW+D+K SG GPDLDSYT+LIHGLCEKQKWKEAC
Sbjct: 404 CLPDMHTYNILVGMFVKLNRMEIVQEIWDDMKTSGAGPDLDSYTLLIHGLCEKQKWKEAC 463

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
            +FVEMIEKG LPQK+TFETLYRGLIQSDML+TWRRLKKKL+EESITFGSEFQ YHFKPY
Sbjct: 464 HFFVEMIEKGYLPQKITFETLYRGLIQSDMLKTWRRLKKKLEEESITFGSEFQQYHFKPY 523

Query: 301 RR 302
           RR
Sbjct: 524 RR 525

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147767583|emb|CAN60200.1| hypothetical protein VITISV_039678 [Vitis vinifera]

 Score =  527 bits (1357), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 236/302 (78%), Positives = 277/302 (91%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCKINR+ +AER LGEM+ERG+  NVVTYNVLLNG+CR ASLHP +RFE+TI
Sbjct: 224 MYTILIYGWCKINRVSIAERLLGEMVERGJXANVVTYNVLLNGICRXASLHPDDRFERTI 283

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           R+AEKV DEMR  GIEPDVTS+SIV+HVYSRAH+P+L+LDKL  MK+KGI PTVATY+SV
Sbjct: 284 RDAEKVLDEMRQXGIEPDVTSYSIVIHVYSRAHKPELTLDKLRMMKDKGIWPTVATYTSV 343

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           VKCLCSCGR+EDAEEL+ +MV++GV PSA TYNCFFKEYRGRKD++ A++LYR+MKE+  
Sbjct: 344 VKCLCSCGRLEDAEELVSDMVKDGVSPSAATYNCFFKEYRGRKDSDNALRLYRKMKEEYS 403

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C+P+MH+YNIL+GMF+ LNRM++V+EIW+D+K SG GPDLDSYT+LIHGLCEKQKWKEAC
Sbjct: 404 CLPDMHTYNILVGMFVKLNRMEIVQEIWDDMKTSGAGPDLDSYTLLIHGLCEKQKWKEAC 463

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
            +FVEMIEKG LPQK+TFETLYRGLIQSDML+TWRRLKKKL+EESITFGSEFQ YHFKPY
Sbjct: 464 HFFVEMIEKGYLPQKITFETLYRGLIQSDMLKTWRRLKKKLEEESITFGSEFQXYHFKPY 523

Query: 301 RR 302
           RR
Sbjct: 524 RR 525

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224081016|ref|XP_002306265.1| predicted protein [Populus trichocarpa] gi|222855714|gb|EEE93261.1| predicted protein [Populus trichocarpa]

 Score =  524 bits (1349), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 245/302 (81%), Positives = 269/302 (89%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCKI RIDMAERFL E  ERG+E  VVTYNVLLNG+CRRASLHP  RFE+TI
Sbjct: 247 MYTVLIYGWCKIGRIDMAERFLKETGERGIEATVVTYNVLLNGICRRASLHPESRFERTI 306

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
             AE +FDEMR RGIEPDVTSFSIVLHVYSRAH+P+L+LDKL  MKEKGICP+V TY+SV
Sbjct: 307 TLAENLFDEMRERGIEPDVTSFSIVLHVYSRAHKPELTLDKLKLMKEKGICPSVVTYTSV 366

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           VKCLCSCGRIEDAEELLGEMVRNGV  +A TYNCFFKEY GRKDA  A+KLY++M+EDGL
Sbjct: 367 VKCLCSCGRIEDAEELLGEMVRNGVSRTAVTYNCFFKEYMGRKDAESALKLYKKMREDGL 426

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
               +HSYNIL+ MFM LNR+D+V EIW D+K SGLGPDLDSYTMLIHGLCEK+KW+EAC
Sbjct: 427 GSLGLHSYNILLRMFMMLNRLDIVNEIWEDLKSSGLGPDLDSYTMLIHGLCEKEKWREAC 486

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
           ++FVEMIEKGLLPQKVTFETLY+GLIQSDMLRTWRRLKKKLDEESITFGSEFQNY  KPY
Sbjct: 487 KFFVEMIEKGLLPQKVTFETLYKGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYQLKPY 546

Query: 301 RR 302
           RR
Sbjct: 547 RR 548

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357455845|ref|XP_003598203.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355487251|gb|AES68454.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  512 bits (1319), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 232/302 (76%), Positives = 264/302 (87%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCKI R   A  FL EM  +GVEPNVVTYNV+LNG+CR+ASLHP ERFE+TI
Sbjct: 202 MYTVLIYGWCKIGRFKTALSFLNEMKVKGVEPNVVTYNVILNGICRKASLHPEERFERTI 261

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           R+AEKVFDEMR  GIEPDVTSFSIVLHVYSRAH+PQL LDKL  MKEKGICP V TY+SV
Sbjct: 262 RDAEKVFDEMRESGIEPDVTSFSIVLHVYSRAHKPQLVLDKLGLMKEKGICPNVVTYTSV 321

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           +KCLCSCGRIE+AE+L+ EMVRNGV P A TYNCFFKEYRGRKDA+ A+K +++MKEDGL
Sbjct: 322 IKCLCSCGRIEEAEDLIDEMVRNGVSPCAATYNCFFKEYRGRKDADKALKFFKKMKEDGL 381

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C P  H+Y +LI MF+  + + +V+EIWND+  SG+GPDLDSYT+LIHGLCE +KW+EAC
Sbjct: 382 CEPTTHTYGVLIAMFLKADMIGVVKEIWNDMMESGVGPDLDSYTVLIHGLCESKKWREAC 441

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
           QYFVEMIEKG LPQKVTFETLYRGLIQSDMLRTWRRLKK+LD+ESITFGSEFQNYH KPY
Sbjct: 442 QYFVEMIEKGFLPQKVTFETLYRGLIQSDMLRTWRRLKKRLDQESITFGSEFQNYHLKPY 501

Query: 301 RR 302
           +R
Sbjct: 502 KR 503

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542990|ref|XP_002512558.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223548519|gb|EEF50010.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  507 bits (1306), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 229/302 (75%), Positives = 267/302 (88%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           +YT LIYGWCKI RIDMAERF+ EM E G+E NVVTYNVLL+G+CRRA L P  RFE+TI
Sbjct: 210 IYTVLIYGWCKIGRIDMAERFIREMDEMGIEANVVTYNVLLDGICRRAKLQPEGRFERTI 269

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
             A+KVFDEMR +GIEPDVTSFSI+LHVYSRAH+PQL++DKL  M+E GICPTVATY+SV
Sbjct: 270 MKADKVFDEMRQKGIEPDVTSFSILLHVYSRAHKPQLTVDKLKLMEEMGICPTVATYTSV 329

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           +KCLCSCGRI+DAEELL +MVRNGV P+A TYNCFFKEYRGRKD   A+KLYR+++++ L
Sbjct: 330 LKCLCSCGRIDDAEELLEQMVRNGVSPNAATYNCFFKEYRGRKDPETALKLYRKIRQENL 389

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C P++H+YNIL+GMFM LNR ++V EIWND++ SG GPDLDSYT+L+HGLCEKQKW++AC
Sbjct: 390 CDPSVHTYNILLGMFMKLNRFNIVNEIWNDLRSSGSGPDLDSYTLLVHGLCEKQKWQKAC 449

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
           Q+FVEMIEKGLLPQK TFE LY GLIQS+MLRTWRRLKKKLDEESI FGSEF NYH KPY
Sbjct: 450 QFFVEMIEKGLLPQKATFEMLYAGLIQSNMLRTWRRLKKKLDEESIAFGSEFSNYHLKPY 509

Query: 301 RR 302
           RR
Sbjct: 510 RR 511

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457341|ref|XP_004146407.1| PREDICTED: pentatricopeptide repeat-containing protein At2g13420, mitochondrial-like [Cucumis sativus] gi|449523938|ref|XP_004168980.1| PREDICTED: pentatricopeptide repeat-containing protein At2g13420, mitochondrial-like [Cucumis sativus]

 Score =  506 bits (1303), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 228/302 (75%), Positives = 268/302 (88%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           +YT LIYGWCKI R +MAERFL +M+ERG+EPNVVTYNVLLNGVCRRASLHP  RFEKTI
Sbjct: 205 IYTILIYGWCKIGRFEMAERFLKDMVERGIEPNVVTYNVLLNGVCRRASLHPEGRFEKTI 264

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           R+AEKVFDEMR RGIEPDVTSFSIVLHVYSRAH+P+LSLDKL  MKE GI PTVATY+SV
Sbjct: 265 RHAEKVFDEMRKRGIEPDVTSFSIVLHVYSRAHKPELSLDKLKQMKELGISPTVATYTSV 324

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           +KCLCSCGR+ED E L+ EMVR+G+ PS  TYNCFFKEYRGRKD  GA++LY++M+ED L
Sbjct: 325 IKCLCSCGRLEDGENLIEEMVRSGISPSPTTYNCFFKEYRGRKDGAGALRLYKKMREDCL 384

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C P++H+YNIL+ +F+ L++ + ++E+WND+K SG+GPDLDSYT +IHGLCEKQ+W EAC
Sbjct: 385 CAPSLHTYNILLALFLNLDKKETLKELWNDMKESGVGPDLDSYTTIIHGLCEKQRWSEAC 444

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
           Q+FVEMIE+G LPQKVTFE LYRGLIQSDMLRTWRRLKKKL+EES T+GSE +NYH KPY
Sbjct: 445 QFFVEMIERGFLPQKVTFEMLYRGLIQSDMLRTWRRLKKKLEEESKTYGSELKNYHIKPY 504

Query: 301 RR 302
            R
Sbjct: 505 MR 506

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499253|ref|XP_003518456.1| PREDICTED: pentatricopeptide repeat-containing protein At2g13420, mitochondrial-like [Glycine max]

 Score =  492 bits (1266), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 223/302 (73%), Positives = 261/302 (86%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCKI RI  A+ FL EMI++G+EPNVVTYNVLLNGVCR+ SLHP ERFE+TI
Sbjct: 209 MYTVLIYGWCKIGRIKTAQSFLNEMIDKGIEPNVVTYNVLLNGVCRKVSLHPEERFERTI 268

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           RNAE+VFD+MR  GIEPDVTSFSI+LHVYSRAH+PQL LDKL+ MKEKGICP V  Y+SV
Sbjct: 269 RNAEEVFDQMRESGIEPDVTSFSILLHVYSRAHKPQLVLDKLSLMKEKGICPNVVMYTSV 328

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           +KCL SCG +EDAE LLGEMVR+GV P A TYNCFFKE+RGRKD   A++++++MKEDGL
Sbjct: 329 IKCLASCGWLEDAERLLGEMVRDGVSPCAATYNCFFKEFRGRKDGESALRMFKRMKEDGL 388

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C+P+ H+Y ILI MF+ L+ + +V+EIW D+K +G GPDLD YT+LIHGLCE+Q+W+EAC
Sbjct: 389 CMPSSHTYVILIRMFLRLDMIKVVKEIWQDMKETGAGPDLDLYTVLIHGLCERQRWREAC 448

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
            YFVEMIE G LP K TFE+LYRGLIQ+DMLRTWRRLKKKLDEESITFGSEFQNY  KPY
Sbjct: 449 HYFVEMIENGFLPLKGTFESLYRGLIQADMLRTWRRLKKKLDEESITFGSEFQNYQLKPY 508

Query: 301 RR 302
           RR
Sbjct: 509 RR 510

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|122236160|sp|Q0WP85.1|PP150_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g13420, mitochondrial; Flags: Precursor gi|110738270|dbj|BAF01064.1| hypothetical protein [Arabidopsis thaliana]

 Score =  475 bits (1222), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 222/302 (73%), Positives = 263/302 (87%), Gaps = 1/302 (0%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           +YT LI GWCK+ RIDMAE+FL EMIE G+EPNVVTYNVLLNG+CR ASLHP ERFE+ +
Sbjct: 209 VYTILIAGWCKLRRIDMAEKFLVEMIESGIEPNVVTYNVLLNGICRTASLHPEERFERNV 268

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           RNAEKVFDEMR RGIEPDVTSFSIVLH+YSRAH+ +L+LDK+  MK KGI PT+ TY+SV
Sbjct: 269 RNAEKVFDEMRQRGIEPDVTSFSIVLHMYSRAHKAELTLDKMKLMKAKGISPTIETYTSV 328

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           VKCLCSCGR+E+AEELL  MV +G+ PS+ TYNCFFKEY+GRKDANGAM LYR+MK +GL
Sbjct: 329 VKCLCSCGRLEEAEELLETMVESGISPSSATYNCFFKEYKGRKDANGAMNLYRKMK-NGL 387

Query: 181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
           C P+  +YN+L+G F+ L +M+ V+EIW+D+K S  GPDLDSYT L+HGLC K+KWKEAC
Sbjct: 388 CKPSTQTYNVLLGTFINLGKMETVKEIWDDLKASETGPDLDSYTSLVHGLCSKEKWKEAC 447

Query: 241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY 300
            YFVEMIE+G LPQK+TFETLY+GLIQS+ +RTWRRLKKKLDEESITFGSEFQ Y F+PY
Sbjct: 448 GYFVEMIERGFLPQKLTFETLYKGLIQSNKMRTWRRLKKKLDEESITFGSEFQRYPFEPY 507

Query: 301 RR 302
           +R
Sbjct: 508 KR 509

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242071011|ref|XP_002450782.1| hypothetical protein SORBIDRAFT_05g018050 [Sorghum bicolor] gi|241936625|gb|EES09770.1| hypothetical protein SORBIDRAFT_05g018050 [Sorghum bicolor]

 Score =  462 bits (1190), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 204/303 (67%), Positives = 254/303 (83%), Gaps = 1/303 (0%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCK+NR DMA +FL +M++ G+EPN+VTYN+LLNG+CR ASLHP  RF++T+
Sbjct: 226 MYTILIYGWCKVNRNDMARKFLKDMLDHGIEPNIVTYNILLNGICRHASLHPDYRFDRTV 285

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
            +AE V  EMR RGIEPDVTS+SI+LHVYSRAH+P+L +     MK++GICPTVATY+SV
Sbjct: 286 HSAEDVLKEMRDRGIEPDVTSYSIILHVYSRAHKPELCVCMFRSMKDRGICPTVATYTSV 345

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG- 179
           +KCL SCGR+EDAE LL EMV  GVCPS  TYNCFFKEYRGR D +GA++LY +MK+ G 
Sbjct: 346 IKCLASCGRLEDAETLLDEMVAEGVCPSPATYNCFFKEYRGRNDVSGALQLYNKMKQPGS 405

Query: 180 LCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA 239
           L  P++H+YNIL+GMF+ LNR   V++IW+D+  S +GPDLDSYT+LIHG C  QKW+EA
Sbjct: 406 LTAPDIHTYNILLGMFIKLNRHGSVKDIWSDMCESTVGPDLDSYTLLIHGFCASQKWREA 465

Query: 240 CQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKP 299
           CQ+F+EMIEKG LPQK+TFETLYRGLIQ+DMLRTWRRLK+++DEE+  FG EF+ YH KP
Sbjct: 466 CQFFMEMIEKGFLPQKITFETLYRGLIQADMLRTWRRLKRRVDEEAAKFGDEFKLYHMKP 525

Query: 300 YRR 302
           Y+R
Sbjct: 526 YKR 528

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125561327|gb|EAZ06775.1| hypothetical protein OsI_29018 [Oryza sativa Indica Group]

 Score =  462 bits (1190), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 202/303 (66%), Positives = 253/303 (83%), Gaps = 1/303 (0%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MYT LIYGWCK+NR DMA++FL +MI  G+EPN+VTYN+LLNG+CR ASLHP  RF++T+
Sbjct: 209 MYTVLIYGWCKVNRNDMAQKFLKDMIYHGIEPNIVTYNILLNGICRHASLHPDYRFDRTV 268

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           R AE +  EM  RGIEPDVTS+S++LHVYSRAH+P+L L     MKE+GICPTVATY+SV
Sbjct: 269 RAAEDLLKEMHQRGIEPDVTSYSVILHVYSRAHKPELCLCMFRSMKERGICPTVATYTSV 328

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG- 179
           +KCL SCGR++DAE LL EM   GVCPS  TYNCFFKEYRGRKD NGA++LY +MK  G 
Sbjct: 329 IKCLASCGRLDDAESLLDEMASEGVCPSPATYNCFFKEYRGRKDVNGALQLYNKMKAPGS 388

Query: 180 LCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA 239
              P++H+YNIL+GMF+ LN+ D V ++WND+  S +GPDL+SYT+L+HGLC+ +KW+EA
Sbjct: 389 PATPDIHTYNILLGMFIKLNQHDTVMQVWNDMCESTVGPDLNSYTLLVHGLCDNKKWREA 448

Query: 240 CQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKP 299
           CQ+F+EMIE+G LPQK+TFETLYRGLIQ+DMLRTWRRLKK++DEE+  FG EF+ YH KP
Sbjct: 449 CQFFMEMIERGFLPQKITFETLYRGLIQADMLRTWRRLKKRVDEEAAKFGEEFKPYHIKP 508

Query: 300 YRR 302
           Y+R
Sbjct: 509 YKR 511

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

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	302
TAIR|locus:2035206	523	AT1G52640 [Arabidopsis thalian	0.841	0.485	0.319	1.7e-36
TAIR|locus:2012883	537	AT1G20300 [Arabidopsis thalian	0.910	0.512	0.292	2.8e-34
TAIR|locus:2204913	491	AT1G02420 "AT1G02420" [Arabido	0.814	0.501	0.330	2.9e-32
TAIR|locus:2185455	598	AT5G14820 "AT5G14820" [Arabido	0.791	0.399	0.292	4.8e-32
TAIR|locus:2096074	599	AT3G62540 "AT3G62540" [Arabido	0.791	0.398	0.292	4.8e-32
TAIR|locus:2096099	599	AT3G62470 "AT3G62470" [Arabido	0.788	0.397	0.306	6.2e-32
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.907	0.432	0.287	8.1e-32
TAIR|locus:2174165	504	AT5G16640 [Arabidopsis thalian	0.877	0.525	0.294	3.9e-31
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.884	0.446	0.296	7.9e-31
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.907	0.366	0.297	8.1e-31

TAIR|locus:2035206 AT1G52640 [Arabidopsis thaliana (taxid:3702)]

 Score = 393 (143.4 bits), Expect = 1.7e-36, P = 1.7e-36
 Identities = 85/266 (31%), Positives = 138/266 (51%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             Y+ L+ GW +I     A +   EM+ER    +++ YN LL+ +C+             + 
Sbjct:   211 YSILVRGWARIRDASGARKVFDEMLERNCVVDLLAYNALLDALCKSGD----------VD 260

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
                K+F EM   G++PD  SF+I +H Y  A     +   L+ MK   + P V T++ ++
Sbjct:   261 GGYKMFQEMGNLGLKPDAYSFAIFIHAYCDAGDVHSAYKVLDRMKRYDLVPNVYTFNHII 320

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
             K LC   +++DA  LL EM++ G  P   TYN     +    + N A KL  +M     C
Sbjct:   321 KTLCKNEKVDDAYLLLDEMIQKGANPDTWTYNSIMAYHCDHCEVNRATKLLSRMDRTK-C 379

Query:   182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ-KWKEAC 240
             +P+ H+YN+++ + + + R D   EIW  +      P + +YT++IHGL  K+ K +EAC
Sbjct:   380 LPDRHTYNMVLKLLIRIGRFDRATEIWEGMSERKFYPTVATYTVMIHGLVRKKGKLEEAC 439

Query:   241 QYFVEMIEKGLLPQKVTFETLYRGLI 266
             +YF  MI++G+ P   T E L   L+
Sbjct:   440 RYFEMMIDEGIPPYSTTVEMLRNRLV 465

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2012883 AT1G20300 [Arabidopsis thaliana (taxid:3702)]

 Score = 372 (136.0 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 84/287 (29%), Positives = 151/287 (52%)

Query:     1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
             +YT+L+ GWC+   I  AE+   EM   G+EPNV TY+++++ +CR             I
Sbjct:   257 VYTNLVRGWCRAGEISEAEKVFKEMKLAGIEPNVYTYSIVIDALCRCGQ----------I 306

Query:    61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
               A  VF +M   G  P+  +F+ ++ V+ +A + +  L   N MK+ G  P   TY+ +
Sbjct:   307 SRAHDVFADMLDSGCAPNAITFNNLMRVHVKAGRTEKVLQVYNQMKKLGCEPDTITYNFL 366

Query:   121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
             ++  C    +E+A ++L  M++     +A T+N  F+    ++D NGA ++Y +M E   
Sbjct:   367 IEAHCRDENLENAVKVLNTMIKKKCEVNASTFNTIFRYIEKKRDVNGAHRMYSKMME-AK 425

Query:   181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
             C PN  +YNIL+ MF+     DMV ++  ++    + P++++Y +L+   C    W  A 
Sbjct:   426 CEPNTVTYNILMRMFVGSKSTDMVLKMKKEMDDKEVEPNVNTYRLLVTMFCGMGHWNNAY 485

Query:   241 QYFVEMIE-KGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI 286
             + F EM+E K L P    +E +   L ++  L+    L +K+ ++ +
Sbjct:   486 KLFKEMVEEKCLTPSLSLYEMVLAQLRRAGQLKKHEELVEKMIQKGL 532

GO:0005739 "mitochondrion" evidence=ISM;IDA

TAIR|locus:2204913 AT1G02420 "AT1G02420" [Arabidopsis thaliana (taxid:3702)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 86/260 (33%), Positives = 137/260 (52%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             +  L+ GW      + AE F  EM  +G++P+VVTYN L++  C+          ++ I 
Sbjct:   217 FNILLSGW---KSSEEAEAFFEEMKGKGLKPDVVTYNSLIDVYCK----------DREIE 263

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
              A K+ D+MR     PDV +++ V+       QP  + + L  MKE G  P VA Y++ +
Sbjct:   264 KAYKLIDKMREEEETPDVITYTTVIGGLGLIGQPDKAREVLKEMKEYGCYPDVAAYNAAI 323

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
             +  C   R+ DA++L+ EMV+ G+ P+A TYN FF+      D   + +LY +M  +  C
Sbjct:   324 RNFCIARRLGDADKLVDEMVKKGLSPNATTYNLFFRVLSLANDLGRSWELYVRMLGNE-C 382

Query:   182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
             +PN  S   LI MF    ++DM   +W D+   G G       +L+  LC+  K +EA +
Sbjct:   383 LPNTQSCMFLIKMFKRHEKVDMAMRLWEDMVVKGFGSYSLVSDVLLDLLCDLAKVEEAEK 442

Query:   242 YFVEMIEKGLLPQKVTFETL 261
               +EM+EKG  P  V+F+ +
Sbjct:   443 CLLEMVEKGHRPSNVSFKRI 462

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2185455 AT5G14820 "AT5G14820" [Arabidopsis thaliana (taxid:3702)]

 Score = 356 (130.4 bits), Expect = 4.8e-32, P = 4.8e-32
 Identities = 73/250 (29%), Positives = 142/250 (56%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             YT L+ GWC++  +  A R   +MI+ G++P++V +NV+L G+ R  S+  S+       
Sbjct:   300 YTVLLNGWCRVRNLIEAARIWNDMIDHGLKPDIVAHNVMLEGLLR--SMKKSD------- 350

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
              A K+F  M+ +G  P+V S++I++  + +    + +++  + M + G+ P  A Y+ ++
Sbjct:   351 -AIKLFHVMKSKGPCPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLI 409

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
                 +  +++   ELL EM   G  P  +TYN   K    +K      ++Y +M ++ + 
Sbjct:   410 TGFGTQKKLDTVYELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEI- 468

Query:   182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
              P++H++N+++  +      +M R +W+++   G+ PD +SYT+LI GL  + K +EAC+
Sbjct:   469 EPSIHTFNMIMKSYFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACR 528

Query:   242 YFVEMIEKGL 251
             Y  EM++KG+
Sbjct:   529 YLEEMLDKGM 538

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096074 AT3G62540 "AT3G62540" [Arabidopsis thaliana (taxid:3702)]

 Score = 356 (130.4 bits), Expect = 4.8e-32, P = 4.8e-32
 Identities = 73/250 (29%), Positives = 142/250 (56%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             YT L+ GWC++  +  A R   +MI+ G++P++V +NV+L G+ R  S+  S+       
Sbjct:   301 YTVLLNGWCRVRNLIEAARIWNDMIDHGLKPDIVAHNVMLEGLLR--SMKKSD------- 351

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
              A K+F  M+ +G  P+V S++I++  + +    + +++  + M + G+ P  A Y+ ++
Sbjct:   352 -AIKLFHVMKSKGPCPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLI 410

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
                 +  +++   ELL EM   G  P  +TYN   K    +K      ++Y +M ++ + 
Sbjct:   411 TGFGTQKKLDTVYELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEI- 469

Query:   182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
              P++H++N+++  +      +M R +W+++   G+ PD +SYT+LI GL  + K +EAC+
Sbjct:   470 EPSIHTFNMIMKSYFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACR 529

Query:   242 YFVEMIEKGL 251
             Y  EM++KG+
Sbjct:   530 YLEEMLDKGM 539

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096099 AT3G62470 "AT3G62470" [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 6.2e-32, P = 6.2e-32
 Identities = 77/251 (30%), Positives = 146/251 (58%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             YT L+ GWC++  +  A R   +MI++G++P++V +NV+L G+ R          +K+  
Sbjct:   301 YTVLLNGWCRVRNLIEAARIWNDMIDQGLKPDIVAHNVMLEGLLRSR--------KKS-- 350

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
             +A K+F  M+ +G  P+V S++I++  + +    + +++  + M + G+ P  A Y+ ++
Sbjct:   351 DAIKLFHVMKSKGPCPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLI 410

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
                 +  +++   ELL EM   G  P  +TYN   K    +K    A ++Y +M ++ + 
Sbjct:   411 TGFGTQKKLDTVYELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHATRIYNKMIQNEI- 469

Query:   182 VPNMHSYNILI-GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
              P++H++N+++   FMA N  +M R +W ++   G+ PD +SYT+LI GL  + K +EAC
Sbjct:   470 EPSIHTFNMIMKSYFMARN-YEMGRAVWEEMIKKGICPDDNSYTVLIRGLIGEGKSREAC 528

Query:   241 QYFVEMIEKGL 251
             +Y  EM++KG+
Sbjct:   529 RYLEEMLDKGM 539

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2203916 AT1G62590 [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 8.1e-32, P = 8.1e-32
 Identities = 82/285 (28%), Positives = 146/285 (51%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             +T+LI+G    N+   A   +  M++RG +PN+VTY V++NG+C+R              
Sbjct:   193 FTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDTDL--------- 243

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
              A  + ++M    IE DV  F+ ++    +      +L+    M+ KGI P V TYSS++
Sbjct:   244 -ALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLI 302

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
              CLCS GR  DA +LL +M+   + P+  T+N     +        A KLY  M +  + 
Sbjct:   303 SCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSID 362

Query:   182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
              P++ +YN L+  F   +R+D  ++++  +      PD+ +Y  LI G C+ ++ ++  +
Sbjct:   363 -PDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTE 421

Query:   242 YFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI 286
              F EM  +GL+   VT+ TL +GL         +++ K++  + +
Sbjct:   422 LFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGV 466

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2174165 AT5G16640 [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 3.9e-31, P = 3.9e-31
 Identities = 82/278 (29%), Positives = 153/278 (55%)

Query:     5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAE 64
             L+  +C+ +++ +A  FLG+MI+ G EP++VT+  LLNG CR       +R    + +A 
Sbjct:   122 LLNCFCRCSQLSLALSFLGKMIKLGHEPSIVTFGSLLNGFCR------GDR----VYDAL 171

Query:    65 KVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCL 124
              +FD+M   G +P+V  ++ ++    ++ Q   +LD LN M++ GI P V TY+S++  L
Sbjct:   172 YMFDQMVGMGYKPNVVIYNTIIDGLCKSKQVDNALDLLNRMEKDGIGPDVVTYNSLISGL 231

Query:   125 CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN 184
             CS GR  DA  ++  M +  + P   T+N            + A + Y +M    L  P+
Sbjct:   232 CSSGRWSDATRMVSCMTKREIYPDVFTFNALIDACVKEGRVSEAEEFYEEMIRRSLD-PD 290

Query:   185 MHSYNILI-GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYF 243
             + +Y++LI G+ M  +R+D   E++  +   G  PD+ +Y++LI+G C+ +K +   + F
Sbjct:   291 IVTYSLLIYGLCM-YSRLDEAEEMFGFMVSKGCFPDVVTYSILINGYCKSKKVEHGMKLF 349

Query:   244 VEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKL 281
              EM ++G++   VT+  L +G  ++  L     + +++
Sbjct:   350 CEMSQRGVVRNTVTYTILIQGYCRAGKLNVAEEIFRRM 387

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 345 (126.5 bits), Expect = 7.9e-31, P = 7.9e-31
 Identities = 84/283 (29%), Positives = 146/283 (51%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             Y +++   C   ++  A   L  M++R   P+V+TY +L+   CR          +  + 
Sbjct:   207 YNTILRSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEATCR----------DSGVG 256

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
             +A K+ DEMR RG  PDV +++++++   +  +   ++  LN M   G  P V T++ ++
Sbjct:   257 HAMKLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIIL 316

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG-AMKLYRQMKEDGL 180
             + +CS GR  DAE+LL +M+R G  PS  T+N     +  RK   G A+ +  +M + G 
Sbjct:   317 RSMCSTGRWMDAEKLLADMLRKGFSPSVVTFNILIN-FLCRKGLLGRAIDILEKMPQHG- 374

Query:   181 CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC 240
             C PN  SYN L+  F    +MD   E    +   G  PD+ +Y  ++  LC+  K ++A 
Sbjct:   375 CQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAV 434

Query:   241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE 283
             +   ++  KG  P  +T+ T+  GL ++   +T + +K  LDE
Sbjct:   435 EILNQLSSKGCSPVLITYNTVIDGLAKAG--KTGKAIKL-LDE 474

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

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

 Score = 348 (127.6 bits), Expect = 8.1e-31, P = 8.1e-31
 Identities = 85/286 (29%), Positives = 149/286 (52%)

Query:     2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
             Y +LI G+CK      A     EM+  G+ P+V+TY  L++ +C+  +++ +  F     
Sbjct:   313 YNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEF----- 367

Query:    62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
                   D+MRVRG+ P+  +++ ++  +S+      +   L  M + G  P+V TY++++
Sbjct:   368 -----LDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALI 422

Query:   122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
                C  G++EDA  +L +M   G+ P   +Y+     +    D + A+++ R+M E G+ 
Sbjct:   423 NGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGI- 481

Query:   182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ 241
              P+  +Y+ LI  F    R     +++ ++   GL PD  +YT LI+  C +   ++A Q
Sbjct:   482 KPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQ 541

Query:   242 YFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD-EESI 286
                EM+EKG+LP  VT+  L  GL +    R  +RL  KL  EES+
Sbjct:   542 LHNEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESV 587

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q0WP85	PP150_ARATH	No assigned EC number	0.7350	0.9966	0.5913	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00006023001 SubName- Full=Chromosome chr4 scaffold_162, whole genome shotgun sequence; (525 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	302
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-18
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	6e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	9e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.002
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.002
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.003

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

 Score = 84.5 bits (209), Expect = 3e-18
 Identities = 64/276 (23%), Positives = 117/276 (42%), Gaps = 19/276 (6%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           +YT+LI    K  ++D       EM+  GVE NV T+  L++G C RA            
Sbjct: 474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDG-CARAGQVA-------- 524

Query: 61  RNAEKVFDE---MRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMK--EKGICPTVA 115
               K F     MR + ++PD   F+ ++    ++     + D L  MK     I P   
Sbjct: 525 ----KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHI 580

Query: 116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQM 175
           T  +++K   + G+++ A+E+   +    +  + E Y         + D + A+ +Y  M
Sbjct: 581 TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM 640

Query: 176 KEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK 235
           K+ G+  P+   ++ L+ +      +D   EI  D +  G+     SY+ L+      + 
Sbjct: 641 KKKGV-KPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

Query: 236 WKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDML 271
           WK+A + + ++    L P   T   L   L + + L
Sbjct: 700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQL 735

Length = 1060

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

 Score = 76.8 bits (189), Expect = 1e-15
 Identities = 64/261 (24%), Positives = 111/261 (42%), Gaps = 28/261 (10%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           YT  +    +    D A     +M ++GV+P+ V ++ L++      + H        + 
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD-----VAGH-----AGDLD 666

Query: 62  NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV 121
            A ++  + R +GI+    S+S ++   S A   + +L+    +K   + PTV+T ++++
Sbjct: 667 KAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI 726

Query: 122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC 181
             LC   ++  A E+L EM R G+CP+  TY+        + DA+  + L  Q KEDG+ 
Sbjct: 727 TALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGI- 785

Query: 182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE-AC 240
            PN+     + G+ +        R               DS    I     + KW   A 
Sbjct: 786 KPNLVMCRCITGLCL--------RRFEKACALGEPVVSFDSGRPQI-----ENKWTSWAL 832

Query: 241 QYFVEMIEKGLLPQKVTFETL 261
             + E I  G LP   T E L
Sbjct: 833 MVYRETISAGTLP---TMEVL 850

Length = 1060

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

 Score = 65.9 bits (162), Expect = 2e-14
 Identities = 19/45 (42%), Positives = 34/45 (75%)

Query: 2  YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCR 46
          Y +LI G+CK  +++ A +   EM +RG++PNV TY++L++G+C+
Sbjct: 6  YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 58.2 bits (142), Expect = 1e-11
 Identities = 22/60 (36%), Positives = 39/60 (65%), Gaps = 10/60 (16%)

Query: 32 PNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR 91
          P+VVTYN L++G C++       + E+    A K+F+EM+ RGI+P+V ++SI++    +
Sbjct: 1  PDVVTYNTLIDGYCKK------GKVEE----ALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 53.9 bits (131), Expect = 5e-10
 Identities = 15/48 (31%), Positives = 27/48 (56%)

Query: 112 PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY 159
           P V TY++++   C  G++E+A +L  EM + G+ P+  TY+      
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 53.6 bits (130), Expect = 7e-10
 Identities = 15/49 (30%), Positives = 33/49 (67%)

Query: 183 PNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLC 231
           P++ +YN LI  +    +++   +++N++K  G+ P++ +Y++LI GLC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 49.7 bits (120), Expect = 2e-08
 Identities = 20/48 (41%), Positives = 29/48 (60%)

Query: 218 PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGL 265
           PD+ +Y  LI G C+K K +EA + F EM ++G+ P   T+  L  GL
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 48.1 bits (116), Expect = 4e-08
 Identities = 16/34 (47%), Positives = 24/34 (70%)

Query: 108 KGICPTVATYSSVVKCLCSCGRIEDAEELLGEMV 141
           KG+ P V TY++++  LC  GR+++A ELL EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 47.0 bits (113), Expect = 1e-07
 Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 147 PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMF 195
           P   TYN     Y  +     A+KL+ +MK+ G   PN+++Y+ILI   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRG-IKPNVYTYSILIDGL 48

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

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

 Score = 47.0 bits (113), Expect = 1e-07
 Identities = 17/49 (34%), Positives = 30/49 (61%)

Query: 77  PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLC 125
           PDV +++ ++  Y +  + + +L   N MK++GI P V TYS ++  LC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 44.6 bits (107), Expect = 6e-07
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 10/44 (22%)

Query: 28 RGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMR 71
          +G++P+VVTYN L++G+CR   +            A ++ DEM 
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVD----------EAVELLDEME 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 = 42.8 bits (102), Expect = 3e-06
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSA 149
           TY++++  LC  GR+E+A EL  EM   G+ 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 46.8 bits (111), Expect = 8e-06
 Identities = 36/152 (23%), Positives = 65/152 (42%), Gaps = 6/152 (3%)

Query: 114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNC-FFKEYRGRKDANGAMKLY 172
              Y      L   GRI+D  +LL +M + G+    + Y+  FFK  + ++    A +  
Sbjct: 370 SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFA 429

Query: 173 RQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE 232
           + ++      P + ++N+L+ +  +   +D    +   V+ +GL  D   YT LI    +
Sbjct: 430 KLIRN-----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK 484

Query: 233 KQKWKEACQYFVEMIEKGLLPQKVTFETLYRG 264
             K     + F EM+  G+     TF  L  G
Sbjct: 485 SGKVDAMFEVFHEMVNAGVEANVHTFGALIDG 516

Length = 1060

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

 Score = 41.3 bits (98), Expect = 1e-05
 Identities = 16/34 (47%), Positives = 21/34 (61%)

Query: 1  MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNV 34
           Y +LI G CK  R++ A     EM ERG+EP+V
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 45.2 bits (107), Expect = 3e-05
 Identities = 43/177 (24%), Positives = 71/177 (40%), Gaps = 28/177 (15%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIR 61
           +TS+I G    NR   A  F  +M+   ++PN VT    L+   R  +L   +     + 
Sbjct: 458 WTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVL 516

Query: 62  NAEKVFD--------EMRVR------------GIEPDVTSFSIVLHVYSRAHQPQLSLDK 101
                FD        ++ VR              E DV S++I+L  Y    +  ++++ 
Sbjct: 517 RTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVEL 576

Query: 102 LNFMKEKGICPTVATYSSVVKCLCSCGR---IEDAEELLGEMVRN-GVCPSAETYNC 154
            N M E G+ P   T+ S+   LC+C R   +    E    M     + P+ + Y C
Sbjct: 577 FNRMVESGVNPDEVTFISL---LCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC 630

Length = 857

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

 Score = 39.4 bits (93), Expect = 6e-05
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGV 145
           TY+S++   C  G++E+A EL  EM   GV
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 14/32 (43%), Positives = 21/32 (65%)

Query: 222 SYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP 253
           +Y  LI GLC+  + +EA + F EM E+G+ P
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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

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

 Score = 37.5 bits (88), Expect = 2e-04
 Identities = 10/31 (32%), Positives = 15/31 (48%)

Query: 2  YTSLIYGWCKINRIDMAERFLGEMIERGVEP 32
          Y +L+    K    D+A   L EM   G++P
Sbjct: 4  YNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 36.9 bits (87), Expect = 3e-04
 Identities = 11/24 (45%), Positives = 14/24 (58%)

Query: 2  YTSLIYGWCKINRIDMAERFLGEM 25
          Y +LI G C+  R+D A   L EM
Sbjct: 10 YNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 36.9 bits (87), Expect = 4e-04
 Identities = 14/33 (42%), Positives = 18/33 (54%)

Query: 214 SGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM 246
            GL PD+ +Y  LI GLC   +  EA +   EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 37.1 bits (87), Expect = 4e-04
 Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 10/45 (22%)

Query: 35 VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDV 79
          VTYN L++G+C+        R E+    A ++F EM+ RGIEPDV
Sbjct: 1  VTYNTLIDGLCKA------GRVEE----ALELFKEMKERGIEPDV 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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 5e-04
 Identities = 13/30 (43%), Positives = 18/30 (60%)

Query: 1  MYTSLIYGWCKINRIDMAERFLGEMIERGV 30
           Y SLI G+CK  +++ A     EM E+GV
Sbjct: 2  TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 36.0 bits (84), Expect = 9e-04
 Identities = 9/32 (28%), Positives = 18/32 (56%)

Query: 114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGV 145
           + TY++++  L   G  + A  +L EM  +G+
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGL 32

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

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

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 14/30 (46%), Positives = 19/30 (63%)

Query: 222 SYTMLIHGLCEKQKWKEACQYFVEMIEKGL 251
           +Y  LI G C+  K +EA + F EM EKG+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 39.1 bits (91), Expect = 0.002
 Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 10/80 (12%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
              +LI   C+ N++  A   L EM   G+ PN +TY++LL      A    SER +   
Sbjct: 721 TMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL-----VA----SER-KDDA 770

Query: 61  RNAEKVFDEMRVRGIEPDVT 80
                +  + +  GI+P++ 
Sbjct: 771 DVGLDLLSQAKEDGIKPNLV 790

Length = 1060

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

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 56/292 (19%), Positives = 102/292 (34%), Gaps = 74/292 (25%)

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
             AEKVF  M  +    D  S++ ++  Y +   P  +L+    M++  + P   T +SV
Sbjct: 340 GEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASV 395

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED-- 178
           +      G ++   +L     R G+       N   + Y   K  + A++++  + E   
Sbjct: 396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

Query: 179 --------GLCV-------------------PN----------------------MHSY- 188
                   GL +                   PN                      +H++ 
Sbjct: 456 ISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHV 515

Query: 189 ------------NILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW 236
                       N L+ +++   RM      WN    +    D+ S+ +L+ G     K 
Sbjct: 516 LRTGIGFDGFLPNALLDLYVRCGRM---NYAWNQF--NSHEKDVVSWNILLTGYVAHGKG 570

Query: 237 KEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRT-WRRLKKKLDEESIT 287
             A + F  M+E G+ P +VTF +L     +S M+           ++ SIT
Sbjct: 571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSIT 622

Length = 857

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

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 56/297 (18%), Positives = 115/297 (38%), Gaps = 55/297 (18%)

Query: 2   YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCR-RASLHPSERFEKTI 60
           Y  L+    +  RI      L +M +RG+      Y+      C+ + ++  + RF K I
Sbjct: 377 YNRLL----RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLI 432

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
           RN              P +++F++++ V + +     +L  L  ++E G+      Y+++
Sbjct: 433 RN--------------PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTL 478

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF-------------FKEY---RGRK- 163
           +      G+++   E+  EMV  GV  +  T+                F  Y   R +  
Sbjct: 479 ISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV 538

Query: 164 -----------DANG-------AMKLYRQMKEDGLCV-PNMHSYNILIGMFMALNRMDMV 204
                       A G       A  +  +MK +   + P+  +   L+       ++D  
Sbjct: 539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA 598

Query: 205 REIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETL 261
           +E++  +    +    + YT+ ++   +K  W  A   + +M +KG+ P +V F  L
Sbjct: 599 KEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSAL 655

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	302
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
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.8
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.77
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.77
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.73
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.72
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.72
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.7
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.67
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.66
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.64
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.63
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.62
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.6
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.6
PRK12370	553	invasion protein regulator; Provisional	99.6
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.59
PRK12370	553	invasion protein regulator; Provisional	99.59
KOG1126	638	consensus DNA-binding cell division cycle control	99.58
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.57
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.57
PRK14574	822	hmsH outer membrane protein; Provisional	99.56
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.54
KOG2003	840	consensus TPR repeat-containing protein [General f	99.52
PRK14574	822	hmsH outer membrane protein; Provisional	99.51
PF13041	50	PPR_2: PPR repeat family	99.51
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.5
KOG1129	478	consensus TPR repeat-containing protein [General f	99.5
KOG1129	478	consensus TPR repeat-containing protein [General f	99.49
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.48
PF13041	50	PPR_2: PPR repeat family	99.47
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.41
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.41
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.4
KOG1126	638	consensus DNA-binding cell division cycle control	99.39
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.38
KOG2076	895	consensus RNA polymerase III transcription factor	99.38
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.36
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.36
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.34
KOG2076	895	consensus RNA polymerase III transcription factor	99.34
PRK11189	296	lipoprotein NlpI; Provisional	99.32
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.31
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.31
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.31
PRK11189	296	lipoprotein NlpI; Provisional	99.3
KOG2003	840	consensus TPR repeat-containing protein [General f	99.25
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.24
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.23
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.23
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.2
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.17
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.17
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.16
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.11
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.09
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.07
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.03
PLN02789	320	farnesyltranstransferase	99.02
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.0
KOG1125	579	consensus TPR repeat-containing protein [General f	98.99
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.96
PF12854	34	PPR_1: PPR repeat	98.96
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.93
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.92
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.92
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.91
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.91
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.9
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.89
PLN02789	320	farnesyltranstransferase	98.88
PF12854	34	PPR_1: PPR repeat	98.87
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.84
KOG1125	579	consensus TPR repeat-containing protein [General f	98.84
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.81
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.78
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
PRK15359	144	type III secretion system chaperone protein SscB;	98.75
PRK15359	144	type III secretion system chaperone protein SscB;	98.75
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.73
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.73
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.73
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.72
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.71
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.71
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.7
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.69
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.67
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.65
PRK04841	903	transcriptional regulator MalT; Provisional	98.64
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.62
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.61
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.6
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.6
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.6
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.6
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.58
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.58
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.58
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.57
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.57
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.56
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.55
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.53
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.53
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.52
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.5
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.46
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.44
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.44
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.43
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.43
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.4
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.37
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.33
PRK04841	903	transcriptional regulator MalT; Provisional	98.32
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.31
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.3
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.3
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.3
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.28
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.28
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.28
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.26
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.25
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.22
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.21
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.2
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.18
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.16
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.15
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.14
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.14
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.13
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.1
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.09
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.06
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.06
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.04
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.03
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.02
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.02
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.0
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.0
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.0
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.99
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.98
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.97
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.97
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.95
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.89
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.88
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.86
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.78
PF12688	120	TPR_5: Tetratrico peptide repeat	97.78
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.76
KOG0553	304	consensus TPR repeat-containing protein [General f	97.76
PF12688	120	TPR_5: Tetratrico peptide repeat	97.75
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.7
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.68
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.66
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.66
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.66
KOG0553	304	consensus TPR repeat-containing protein [General f	97.64
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.63
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.63
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.58
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.58
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.56
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.53
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.53
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.5
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.5
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.48
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.47
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.46
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.46
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.44
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.42
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.42
PRK10803	263	tol-pal system protein YbgF; Provisional	97.36
PRK10803	263	tol-pal system protein YbgF; Provisional	97.31
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.3
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.22
PF13371	73	TPR_9: Tetratricopeptide repeat	97.16
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.11
PRK15331	165	chaperone protein SicA; Provisional	97.08
PF13371	73	TPR_9: Tetratricopeptide repeat	97.05
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.03
PRK15331	165	chaperone protein SicA; Provisional	96.96
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.94
KOG3941	406	consensus Intermediate in Toll signal transduction	96.86
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.82
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.77
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.76
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.75
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.73
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.7
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.67
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.6
KOG3941	406	consensus Intermediate in Toll signal transduction	96.55
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.48
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.46
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.41
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.38
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.31
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.27
PF13512	142	TPR_18: Tetratricopeptide repeat	96.26
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.23
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.22
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.21
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.18
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.16
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.16
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.09
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.06
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.03
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.01
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.91
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.85
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.82
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.74
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.74
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.65
KOG4555	175	consensus TPR repeat-containing protein [Function	95.64
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	95.63
PF13428	44	TPR_14: Tetratricopeptide repeat	95.53
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.52
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.5
PRK11906	458	transcriptional regulator; Provisional	95.48
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.43
PF13428	44	TPR_14: Tetratricopeptide repeat	95.36
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.35
KOG4555	175	consensus TPR repeat-containing protein [Function	95.29
KOG1585	308	consensus Protein required for fusion of vesicles	95.28
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.28
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.23
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.97
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.95
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.94
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.93
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.81
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.79
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.69
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.69
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.65
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.6
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.58
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.48
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.36
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.35
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.32
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.29
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.27
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.13
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.03
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.87
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.87
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.79
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	93.73
PF13512	142	TPR_18: Tetratricopeptide repeat	93.71
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.64
PRK11906	458	transcriptional regulator; Provisional	93.62
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.57
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.18
PF13431	34	TPR_17: Tetratricopeptide repeat	93.08
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.01
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.99
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.85
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.82
KOG1585	308	consensus Protein required for fusion of vesicles	92.56
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.29
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.2
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.99
PF13431	34	TPR_17: Tetratricopeptide repeat	91.96
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.84
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.41
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	91.18
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	91.09
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.08
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.07
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.98
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.96
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.87
KOG1258	577	consensus mRNA processing protein [RNA processing	90.84
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.5
PF13929	292	mRNA_stabil: mRNA stabilisation	89.63
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.62
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	89.48
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	89.22
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.19
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.11
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.78
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	88.77
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.73
KOG1941	518	consensus Acetylcholine receptor-associated protei	88.65
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	88.55
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	88.32
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.22
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.14
PF13929	292	mRNA_stabil: mRNA stabilisation	87.81
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	87.81
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.45
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.41
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.18
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	86.85
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	86.78
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	86.32
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	86.23
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	85.32
KOG1258	577	consensus mRNA processing protein [RNA processing	85.26
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	84.92
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	84.87
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	84.56
PRK09687	280	putative lyase; Provisional	84.3
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.19
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	83.96
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	83.63
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	83.4
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	83.27
KOG4648	536	consensus Uncharacterized conserved protein, conta	82.88
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	82.74
KOG4648	536	consensus Uncharacterized conserved protein, conta	82.14
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.09
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.48
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	81.02
PRK10564	303	maltose regulon periplasmic protein; Provisional	80.69
PHA02875	413	ankyrin repeat protein; Provisional	80.68
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	80.06

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.8e-53  Score=371.75  Aligned_cols=288  Identities=21%  Similarity=0.339  Sum_probs=173.7

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      ||+||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++          .|++++|.++|++|.+.|+.||..+
T Consensus       475 ynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k----------~G~~eeAl~lf~~M~~~Gv~PD~vT  544 (1060)
T PLN03218        475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR----------AGQVAKAFGAYGIMRSKNVKPDRVV  544 (1060)
T ss_pred             HHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----------CcCHHHHHHHHHHHHHcCCCCCHHH
Confidence            566666666666666666666666666666666666666666666          5555566666666666666666666


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHh--cCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKE--KGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      |+.+|.+|++.|++++|.++|++|..  .|+.||..+|++++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|
T Consensus       545 YnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay  624 (1060)
T PLN03218        545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSC  624 (1060)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHH
Confidence            66666666666666666666666644  3455566666666666666666666666666666666556666666666666


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      ++.|++++|.++|++|.+.|. .||..+|+.++.+|++.|++++|.++++.|.+.|++||..+|+.+|.+|++.|++++|
T Consensus       625 ~k~G~~deAl~lf~eM~~~Gv-~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA  703 (1060)
T PLN03218        625 SQKGDWDFALSIYDDMKKKGV-KPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKA  703 (1060)
T ss_pred             HhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence            666666666666666665554 5566666666666666666666666666665555556666666666666666666666


Q ss_pred             HHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhhcccCC
Q 022131          240 CQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPY  300 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~i~~~  300 (302)
                      .++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|+..++..+|.++
T Consensus       704 ~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~  764 (1060)
T PLN03218        704 LELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS  764 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            6666665555555666666666666666666666666666665555555555555555443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.5e-52  Score=369.12  Aligned_cols=291  Identities=18%  Similarity=0.271  Sum_probs=284.6

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      +||.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++          .|++++|.++|++|.+.|+.||..
T Consensus       439 Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k----------~G~vd~A~~vf~eM~~~Gv~Pdvv  508 (1060)
T PLN03218        439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK----------SGKVDAMFEVFHEMVNAGVEANVH  508 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----------CcCHHHHHHHHHHHHHcCCCCCHH
Confidence            5999999999999999999999999999999999999999999999          888999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH--CCCCCChhhHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR--NGVCPSAETYNCFFKE  158 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~  158 (302)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+
T Consensus       509 TynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~a  588 (1060)
T PLN03218        509 TFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA  588 (1060)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999986  5789999999999999


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      |++.|++++|.++|+.|.+.+. +|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++
T Consensus       589 y~k~G~ldeA~elf~~M~e~gi-~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee  667 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHEYNI-KGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK  667 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCC-CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            9999999999999999999997 899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhhcccCCCC
Q 022131          239 ACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR  302 (302)
Q Consensus       239 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~i~~~~~  302 (302)
                      |.+++++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.++..+++.+|..|++
T Consensus       668 A~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k  731 (1060)
T PLN03218        668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE  731 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999988764

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

Probab=100.00  E-value=1.5e-47  Score=333.84  Aligned_cols=283  Identities=18%  Similarity=0.231  Sum_probs=221.7

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      +||++|.+|++.|++++|.++|++|.+.|+.|+..+|+.++.+++.          .+..+.+.+++..+.+.|+.||..
T Consensus       191 t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~----------~~~~~~~~~l~~~~~~~g~~~d~~  260 (697)
T PLN03081        191 SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG----------LGSARAGQQLHCCVLKTGVVGDTF  260 (697)
T ss_pred             eHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhc----------CCcHHHHHHHHHHHHHhCCCccce
Confidence            5888888888888888888888888888888888888888888877          555566666666667777777777


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +++.|+.+|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|+
T Consensus       261 ~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~  336 (697)
T PLN03081        261 VSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS  336 (697)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            777777778888888888888777743    4777788888888888888888888888877777788888888888888


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      +.|+.++|.+++..|.+.|. .||..+++.|+++|++.|++++|.++|++|.+    ||..+||.||.+|++.|+.++|.
T Consensus       337 ~~g~~~~a~~i~~~m~~~g~-~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~  411 (697)
T PLN03081        337 RLALLEHAKQAHAGLIRTGF-PLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAV  411 (697)
T ss_pred             hccchHHHHHHHHHHHHhCC-CCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHH
Confidence            88888888888888877776 77777888888888888888888888877753    57778888888888888888888


Q ss_pred             HHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc-cCCCcccchhhhcccCCCC
Q 022131          241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE-ESITFGSEFQNYHFKPYRR  302 (302)
Q Consensus       241 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~~i~~~~~  302 (302)
                      ++|++|.+.|+.||..||+.++.+|.+.|+.++|.++|+.|.+ .|+.|+...++.++..|+|
T Consensus       412 ~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r  474 (697)
T PLN03081        412 EMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGR  474 (697)
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHh
Confidence            8888887778888888888888888888888888888888765 5777777777777766654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-46  Score=333.91  Aligned_cols=287  Identities=18%  Similarity=0.231  Sum_probs=228.1

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      +||++|.+|++.|++++|.++|++|...|+.||..||+.++.+|++          .++++.+.+++..|...|+.||..
T Consensus       255 s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~----------~g~~~~a~~l~~~~~~~g~~~d~~  324 (857)
T PLN03077        255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL----------LGDERLGREMHGYVVKTGFAVDVS  324 (857)
T ss_pred             hhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----------cCChHHHHHHHHHHHHhCCccchH
Confidence            6999999999999999999999999999999999999999999999          666777777888887777777777


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +|+.|+.+|++.|++++|.++|++|..    ||..+|+.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+
T Consensus       325 ~~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        325 VCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACA  400 (857)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHh
Confidence            777777777777777777777777642    4666777777777777777777777777777777777777777777777


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--------------------------
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--------------------------  214 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------------  214 (302)
                      +.|+.+.+.+++..+.+.|. .|+..+++.|+++|++.|++++|.++|++|.+.                          
T Consensus       401 ~~g~~~~a~~l~~~~~~~g~-~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~  479 (857)
T PLN03077        401 CLGDLDVGVKLHELAERKGL-ISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFR  479 (857)
T ss_pred             ccchHHHHHHHHHHHHHhCC-CcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHH
Confidence            77777777777777766665 566666666666666666666666555554332                          


Q ss_pred             ----CC-----------------------------------------------------------------CCCHHHHHH
Q 022131          215 ----GL-----------------------------------------------------------------GPDLDSYTM  225 (302)
Q Consensus       215 ----~~-----------------------------------------------------------------~~~~~~~~~  225 (302)
                          ++                                                                 .||..+||.
T Consensus       480 ~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~  559 (857)
T PLN03077        480 QMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNI  559 (857)
T ss_pred             HHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHH
Confidence                12                                                                 345667888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc-ccCCCcccchhhhcccCCCC
Q 022131          226 LIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD-EESITFGSEFQNYHFKPYRR  302 (302)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~~i~~~~~  302 (302)
                      +|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|. +.|+.|+...+..++..|+|
T Consensus       560 lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r  637 (857)
T PLN03077        560 LLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGR  637 (857)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Confidence            888999999999999999999999999999999999999999999999999999998 78999999999888877764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-45  Score=329.05  Aligned_cols=283  Identities=16%  Similarity=0.209  Sum_probs=245.0

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      +||++|.+|++.|++++|.++|++|...|+.||..||+.++.+|+.          .+++..+.+++..|...|+.||..
T Consensus       154 ~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~----------~~~~~~~~~~~~~~~~~g~~~~~~  223 (857)
T PLN03077        154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGG----------IPDLARGREVHAHVVRFGFELDVD  223 (857)
T ss_pred             EHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCC----------ccchhhHHHHHHHHHHcCCCcccc
Confidence            5999999999999999999999999999999999999999999988          667778888888888888888888


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +++.|+.+|++.|+++.|.++|++|.+    ||..+|+++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+
T Consensus       224 ~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~  299 (857)
T PLN03077        224 VVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACE  299 (857)
T ss_pred             hHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Confidence            888888888888888888888888753    5778888888888888888888888888888888888888888888888


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      +.|+.+.+.+++..+.+.|. .||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.
T Consensus       300 ~~g~~~~a~~l~~~~~~~g~-~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~  374 (857)
T PLN03077        300 LLGDERLGREMHGYVVKTGF-AVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKAL  374 (857)
T ss_pred             hcCChHHHHHHHHHHHHhCC-ccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHH
Confidence            88888888888888888887 7888888888888888888888888888875    367888888888888888888888


Q ss_pred             HHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhhcccCCCC
Q 022131          241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKPYRR  302 (302)
Q Consensus       241 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~i~~~~~  302 (302)
                      ++|++|.+.|+.||..||+.++.+|.+.|+++++.++++.+.+.|+.++..+.+.+|..|+|
T Consensus       375 ~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k  436 (857)
T PLN03077        375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK  436 (857)
T ss_pred             HHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888888888888888777653

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

Probab=100.00  E-value=1.9e-45  Score=320.68  Aligned_cols=292  Identities=16%  Similarity=0.241  Sum_probs=232.9

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhh---------------------HHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERF---------------------EKT   59 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~---------------------~~~   59 (302)
                      +|+.++.+|++.++++.|.+++..|.+.|+.||..+|+.++.+|++.|+++.+.++                     .|+
T Consensus       125 t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~  204 (697)
T PLN03081        125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN  204 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcC
Confidence            35666666666666666666666666666666666666666666663322221111                     444


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 022131           60 IRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGE  139 (302)
Q Consensus        60 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  139 (302)
                      +++|+++|++|.+.|+.|+..+|+.++.++.+.|+.+.+.+++..+.+.|+.||..+++.++.+|++.|++++|.++|++
T Consensus       205 ~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~  284 (697)
T PLN03081        205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG  284 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHh
Confidence            55555555555555555555555555555555555555555555555666666777778888999999999999999998


Q ss_pred             HHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 022131          140 MVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD  219 (302)
Q Consensus       140 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  219 (302)
                      |.+    +|..+|+.++.+|++.|+.++|.++|++|.+.|. .||..||+.++.+|++.|++++|.+++..|.+.|+.||
T Consensus       285 m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~-~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d  359 (697)
T PLN03081        285 MPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV-SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLD  359 (697)
T ss_pred             CCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCC
Confidence            864    6889999999999999999999999999999987 89999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhhcccC
Q 022131          220 LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKP  299 (302)
Q Consensus       220 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~i~~  299 (302)
                      ..+|+.|+.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|+.++|.++|++|.+.|+.|+..++..+|.+
T Consensus       360 ~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        360 IVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA  435 (697)
T ss_pred             eeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            9999999999999999999999999984    479999999999999999999999999999999999999999988877


Q ss_pred             CC
Q 022131          300 YR  301 (302)
Q Consensus       300 ~~  301 (302)
                      ++
T Consensus       436 ~~  437 (697)
T PLN03081        436 CR  437 (697)
T ss_pred             Hh
Confidence            65

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=8.5e-22  Score=162.07  Aligned_cols=273  Identities=15%  Similarity=0.109  Sum_probs=171.0

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCccc---HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPN---VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD   78 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~   78 (302)
                      |..+...+...|++++|..+++.+...+..++   ...+..+...+..          .|++++|+.+|+++.+.. +++
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~----------~g~~~~A~~~~~~~l~~~-~~~  140 (389)
T PRK11788         72 HLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK----------AGLLDRAEELFLQLVDEG-DFA  140 (389)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHcCC-cch
Confidence            34455566666666666666666655421111   1345555555555          566677777777776542 335


Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT----VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNC  154 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  154 (302)
                      ..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|...++++.+... .+...+..
T Consensus       141 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~  219 (389)
T PRK11788        141 EGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADP-QCVRASIL  219 (389)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCc-CCHHHHHH
Confidence            56667777777777777777777777766543221    11344555666677777777777777766432 23456666


Q ss_pred             HHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ  234 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  234 (302)
                      +...+...|++++|.++++++.+.+. .....+++.++.+|...|++++|...++++.+.  .|+...+..++..+.+.|
T Consensus       220 la~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g  296 (389)
T PRK11788        220 LGDLALAQGDYAAAIEALERVEEQDP-EYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQE  296 (389)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCh-hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhC
Confidence            66777777777777777777766531 112345666777777777777777777777664  355555666777777777


Q ss_pred             CHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhh---cchHHHHHHHHHhccccCCCcccc
Q 022131          235 KWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQ---SDMLRTWRRLKKKLDEESITFGSE  291 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  291 (302)
                      ++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++++.+.++.+++.
T Consensus       297 ~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        297 GPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            777777777777653  5677677766665553   446777777777777766666554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=7.4e-21  Score=156.51  Aligned_cols=263  Identities=12%  Similarity=0.045  Sum_probs=220.1

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC---HHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD---VTSFS   83 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~   83 (302)
                      ..+...|++++|...|.++.+.+ +.+..++..+...+..          .|++++|..+++.+...+..++   ...+.
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~----------~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~  111 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRR----------RGEVDRAIRIHQNLLSRPDLTREQRLLALQ  111 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHH----------cCcHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            34567899999999999999873 3456688888888888          8899999999999987642222   35678


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC----hhhHHHHHHHH
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS----AETYNCFFKEY  159 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~  159 (302)
                      .+...|.+.|++++|..+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+
T Consensus       112 ~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~  190 (389)
T PRK11788        112 ELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQA  190 (389)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            89999999999999999999998864 44678899999999999999999999999988654332    22455677788


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      ...|++++|...++++.+..  +.+...+..+...+.+.|++++|.+.++++.+.+......+++.++.+|...|++++|
T Consensus       191 ~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  268 (389)
T PRK11788        191 LARGDLDAARALLKKALAAD--PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEG  268 (389)
T ss_pred             HhCCCHHHHHHHHHHHHhHC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHH
Confidence            89999999999999998875  4567788889999999999999999999998763333356788999999999999999


Q ss_pred             HHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          240 CQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ...++++.+.  .|+...+..+...+.+.|++++|..+++++.+..
T Consensus       269 ~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~  312 (389)
T PRK11788        269 LEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRH  312 (389)
T ss_pred             HHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            9999999875  5777777889999999999999999999887763

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

Probab=99.88  E-value=3.4e-19  Score=161.67  Aligned_cols=266  Identities=9%  Similarity=0.010  Sum_probs=186.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+..++...|++++|...|+.+.+.. +.+...+..+..++..          .+++++|...|+++.+.. +.+..+
T Consensus       604 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~  671 (899)
T TIGR02917       604 WLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAV----------MKNYAKAITSLKRALELK-PDNTEA  671 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH----------cCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            6677888888899999999998887763 3456677778888887          777788888888877653 335677


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      +..+...+...|++++|.++++.+.+.+ +.+...+..+...+.+.|++++|...|+++...+  |+..++..+..++..
T Consensus       672 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~  748 (899)
T TIGR02917       672 QIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLA  748 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHH
Confidence            7777788888888888888888777765 3466667777777777788888888887777653  344566667777777


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      .|++++|.+.+..+.+..  +.+...+..+...|...|++++|...|+++.+.. +++...++.+...+...|+ .+|+.
T Consensus       749 ~g~~~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~  824 (899)
T TIGR02917       749 SGNTAEAVKTLEAWLKTH--PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALE  824 (899)
T ss_pred             CCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHH
Confidence            777777777777777664  5666777777777777777777777777777653 3456666666666666666 55666


Q ss_pred             HHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCC
Q 022131          242 YFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       242 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  287 (302)
                      .++++.+.. +-+..++..+..++...|++++|..+++++.+.+..
T Consensus       825 ~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       825 YAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            666665531 223344555556666666666666666666665543

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

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

Probab=99.87  E-value=6.1e-19  Score=160.01  Aligned_cols=263  Identities=12%  Similarity=0.078  Sum_probs=191.7

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      +..+...+.+.|++++|.++++.+.+. .+.+...|..+..++..          .+++++|...|+++.+.. +.+...
T Consensus       570 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~  637 (899)
T TIGR02917       570 ALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLA----------AGDLNKAVSSFKKLLALQ-PDSALA  637 (899)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCChHH
Confidence            445677777788888888888877654 34466677777777777          677777888888777653 335666


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      +..+..++.+.|++++|...++++.+.. +.+..++..+...+...|++++|..+++.+.+... .+...+..+...+..
T Consensus       638 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~  715 (899)
T TIGR02917       638 LLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLR  715 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHH
Confidence            7777777778888888888888777654 33566777777888888888888888888777643 466677777777778


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      .|++++|...+..+...+   |+..++..+..++.+.|++++|.+.++.+.+. .+.+...+..+...|...|++++|..
T Consensus       716 ~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~  791 (899)
T TIGR02917       716 QKDYPAAIQAYRKALKRA---PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT-HPNDAVLRTALAELYLAQKDYDKAIK  791 (899)
T ss_pred             CCCHHHHHHHHHHHHhhC---CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCcCHHHHHH
Confidence            888888888888877763   44466677777777888888888888777765 34567777777777777888888888


Q ss_pred             HHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          242 YFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       242 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .|+++.+.. +++..++..+...+...|+ ++|..++++..+.
T Consensus       792 ~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       792 HYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            888877653 4456677777777777777 6777777776654

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=2.2e-16  Score=136.85  Aligned_cols=190  Identities=10%  Similarity=0.056  Sum_probs=95.7

Q ss_pred             HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchH-
Q 022131           89 YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG-  167 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  167 (302)
                      +...|++++|...++.+.+....++......+...+.+.|++++|+..+++..+... .+...+..+...+...|++++ 
T Consensus       187 l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p-~~~~~~~~Lg~~l~~~G~~~eA  265 (656)
T PRK15174        187 FLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGL-DGAALRRSLGLAYYQSGRSREA  265 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCchhh
Confidence            344444444444444444332222222333334444555555555555555554422 234445555555555555553 


Q ss_pred             ---HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          168 ---AMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       168 ---a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                         |...+++..+..  +.+...+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...++
T Consensus       266 ~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~  342 (656)
T PRK15174        266 KLQAAEHWRHALQFN--SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFV  342 (656)
T ss_pred             HHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence               555555555543  3445555555666666666666666666655542 2234445555556666666666666666


Q ss_pred             HHHHCCCCCchhh-HHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          245 EMIEKGLLPQKVT-FETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       245 ~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ++.+.  .|+... +..+..++...|+.++|...+++..+.
T Consensus       343 ~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        343 QLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            65543  233322 222344555666666666666654443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.80  E-value=4.1e-16  Score=135.13  Aligned_cols=263  Identities=8%  Similarity=0.011  Sum_probs=198.1

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +..+....|++++|+..++++.... +.+...+..+...+..          .|++++|...++++.... +.+...+..
T Consensus        82 l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~----------~g~~~~Ai~~l~~Al~l~-P~~~~a~~~  149 (656)
T PRK15174         82 WVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLK----------SKQYATVADLAEQAWLAF-SGNSQIFAL  149 (656)
T ss_pred             HhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            4455566788888888888877652 3345566666666677          777888888888888763 335667778


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      +...+...|++++|...++.+...... +...+..+ ..+.+.|++++|...++.+.+....++...+..+...+...|+
T Consensus       150 la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~  227 (656)
T PRK15174        150 HLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGK  227 (656)
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCC
Confidence            888888888888888888877665433 33333333 3467788888888888888776433444555556677888999


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDM----VREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      +++|...+++..+..  +.+...+..+...+...|++++    |...+++.... .+.+...+..+...+...|++++|.
T Consensus       228 ~~eA~~~~~~al~~~--p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l-~P~~~~a~~~lg~~l~~~g~~~eA~  304 (656)
T PRK15174        228 YQEAIQTGESALARG--LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF-NSDNVRIVTLYADALIRTGQNEKAI  304 (656)
T ss_pred             HHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999988875  5677888888899999999885    78899988875 2346778889999999999999999


Q ss_pred             HHHHHHHHCCCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          241 QYFVEMIEKGLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       241 ~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      ..+++..+.  .|+ ...+..+..++...|++++|...++++.+...
T Consensus       305 ~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P  349 (656)
T PRK15174        305 PLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKG  349 (656)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            999999874  344 45677778899999999999999998876543

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

Probab=99.79  E-value=1.8e-18  Score=135.56  Aligned_cols=261  Identities=15%  Similarity=0.153  Sum_probs=115.7

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHH-HHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNV-LLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS   83 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (302)
                      +...+.+.|++++|++++........+|+...|-. +...+..          .++++.|.+.++++...+.. +...+.
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~----------~~~~~~A~~ay~~l~~~~~~-~~~~~~   82 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWS----------LGDYDEAIEAYEKLLASDKA-NPQDYE   82 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccc----------cccccccccccccccccccc-cccccc
Confidence            34567789999999999976655532344444444 4444444          88999999999999987533 666777


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHcc
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNG-VCPSAETYNCFFKEYRGR  162 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~  162 (302)
                      .++.. ...+++++|.++++...+..  ++...+..++..+.+.++++++..+++.+.... .+.+...|..+...+.+.
T Consensus        83 ~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~  159 (280)
T PF13429_consen   83 RLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQL  159 (280)
T ss_dssp             --------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHC
T ss_pred             ccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHc
Confidence            88877 78999999999998876653  466778889999999999999999999987543 346778889999999999


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      |+.++|.+.+++..+..  |.|......++..+...|+.+++.+++....+.. +.|...+..+..++...|+.++|+..
T Consensus       160 G~~~~A~~~~~~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~  236 (280)
T PF13429_consen  160 GDPDKALRDYRKALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEY  236 (280)
T ss_dssp             CHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccc
Confidence            99999999999999985  5568889999999999999999999998887763 55667888999999999999999999


Q ss_pred             HHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          243 FVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       243 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      +++..+. .+.|+.+...+..++...|+.++|.++.++..+
T Consensus       237 ~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  237 LEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHH-STT-HHHHHHHHHHHT-----------------
T ss_pred             ccccccc-ccccccccccccccccccccccccccccccccc
Confidence            9999874 244788888999999999999999999877543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.2e-15  Score=118.51  Aligned_cols=276  Identities=16%  Similarity=0.224  Sum_probs=192.8

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      +|.++|.++|+--..++|.+++++-.....+.+..+||.+|.+.+-              ....++..+|.+..+.||..
T Consensus       209 t~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~--------------~~~K~Lv~EMisqkm~Pnl~  274 (625)
T KOG4422|consen  209 TVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY--------------SVGKKLVAEMISQKMTPNLF  274 (625)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh--------------hccHHHHHHHHHhhcCCchH
Confidence            5889999999999999999999999988889999999999987655              22378899999999999999


Q ss_pred             HHHHHHHHHHhcCCchh----HHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHH-HHHHHHHHHHC----CCCC----
Q 022131           81 SFSIVLHVYSRAHQPQL----SLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIED-AEELLGEMVRN----GVCP----  147 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~----~~~~----  147 (302)
                      |||+++++..+.|+++.    |.+++.+|++.|+.|+..+|..+|..+.+.++..+ +..++.++...    .++|    
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            99999999999998765    57788999999999999999999999999888754 45555555432    2222    


Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC-----------------------------------------CCCCHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL-----------------------------------------CVPNMH  186 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------------------------------------~~~~~~  186 (302)
                      |...|...|..|.+..+.+-|.++..-+.....                                         .-|+..
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            344556666667666665555544433321110                                         245555


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-------------------C-----------------------------
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLG-------------------P-----------------------------  218 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------------------~-----------------------------  218 (302)
                      +...++++....|.++-.-++|..++..|..                   |                             
T Consensus       435 ~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R  514 (625)
T KOG4422|consen  435 TMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIR  514 (625)
T ss_pred             hHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            6667777777778888777777777665521                   1                             


Q ss_pred             ------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CC---CchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCc
Q 022131          219 ------DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG-LL---PQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITF  288 (302)
Q Consensus       219 ------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~---p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  288 (302)
                            .....+.+.-.+.+.|..++|.+++..+.+.+ -.   |......-++++..+.++...|..+++-+...+...
T Consensus       515 ~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~  594 (625)
T KOG4422|consen  515 QRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPI  594 (625)
T ss_pred             HHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchh
Confidence                  22334444555567777777777777664332 22   222333355566666667777777777666555544


Q ss_pred             cc
Q 022131          289 GS  290 (302)
Q Consensus       289 ~~  290 (302)
                      -.
T Consensus       595 ~E  596 (625)
T KOG4422|consen  595 CE  596 (625)
T ss_pred             hh
Confidence            33

>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=99.77  E-value=2.8e-15  Score=130.03  Aligned_cols=258  Identities=11%  Similarity=0.028  Sum_probs=208.1

Q ss_pred             cCCcchHHHHHHHHHhCC-Ccc-cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 022131           12 INRIDMAERFLGEMIERG-VEP-NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVY   89 (302)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~-~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   89 (302)
                      .+++++|.+.|+.....+ ..| ....++.+...+..          .|++++|+..|++..... +.+...|..+...+
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~----------~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~  375 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCL----------KGKHLEALADLSKSIELD-PRVTQSYIKRASMN  375 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHH
Confidence            367899999999998764 233 34567777777777          788999999999998863 22466888899999


Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHH
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      ...|++++|...+++..+.. +.+..++..+...+...|++++|...|++..+... .+...+..+..++.+.|++++|.
T Consensus       376 ~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~  453 (615)
T TIGR00990       376 LELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEGSIASSM  453 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999998875 34678899999999999999999999999998743 45777888889999999999999


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHHcCCHHHHHHHH
Q 022131          170 KLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL------DSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      ..+++..+..  +.+...++.+...+...|++++|.+.|++........+.      ..++.....+...|++++|.+++
T Consensus       454 ~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~  531 (615)
T TIGR00990       454 ATFRRCKKNF--PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLC  531 (615)
T ss_pred             HHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            9999998874  567888999999999999999999999998875321111      11222233344469999999999


Q ss_pred             HHHHHCCCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          244 VEMIEKGLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       244 ~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      ++..+.  .|+ ...+..+...+.+.|++++|.+++++..+..-
T Consensus       532 ~kAl~l--~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~  573 (615)
T TIGR00990       532 EKALII--DPECDIAVATMAQLLLQQGDVDEALKLFERAAELAR  573 (615)
T ss_pred             HHHHhc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhc
Confidence            998775  344 45688899999999999999999998766543

>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=99.77  E-value=9.1e-15  Score=126.91  Aligned_cols=263  Identities=8%  Similarity=-0.058  Sum_probs=186.7

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      .-..+.+.|++++|+..|++....  .|+...|..+..+|.+          .+++++|++.++...+.+ +.+...+..
T Consensus       133 ~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~----------l~~~~~Ai~~~~~al~l~-p~~~~a~~~  199 (615)
T TIGR00990       133 KGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNA----------LGDWEKVVEDTTAALELD-PDYSKALNR  199 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHH----------hCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence            345567778888888888877764  5666677777777777          556666666666665542 223445555


Q ss_pred             HHHHHHhcCCchhH------------------------------------------------------------------
Q 022131           85 VLHVYSRAHQPQLS------------------------------------------------------------------   98 (302)
Q Consensus        85 ll~~~~~~~~~~~a------------------------------------------------------------------   98 (302)
                      +..++...|++++|                                                                  
T Consensus       200 ~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  279 (615)
T TIGR00990       200 RANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAG  279 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhh
Confidence            55555555555544                                                                  


Q ss_pred             ----------------------------------HHHHHHHHhcC-C-CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           99 ----------------------------------LDKLNFMKEKG-I-CPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        99 ----------------------------------~~~~~~~~~~~-~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                                                        .+.|+...+.+ . +.....+..+...+...|++++|+..+++..+
T Consensus       280 ~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~  359 (615)
T TIGR00990       280 LEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIE  359 (615)
T ss_pred             hhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                              44444443332 1 11234566666677778888888888888877


Q ss_pred             CCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 022131          143 NGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDS  222 (302)
Q Consensus       143 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  222 (302)
                      ... .....|..+...+...|++++|...+++..+..  +.+...+..+...+...|++++|...|++..+.. +.+...
T Consensus       360 l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~  435 (615)
T TIGR00990       360 LDP-RVTQSYIKRASMNLELGDPDKAEEDFDKALKLN--SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFS  435 (615)
T ss_pred             cCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHH
Confidence            532 235677778888888899999999998888775  5667888888888889999999999999888762 345677


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          223 YTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       223 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +..+..++.+.|++++|+..|++..+. .+-+...+..+..++...|++++|...+++..+..
T Consensus       436 ~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       436 HIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            778888888999999999999988764 23346778888889999999999999988866544

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

Probab=99.73  E-value=5.1e-15  Score=120.18  Aligned_cols=270  Identities=10%  Similarity=0.067  Sum_probs=154.9

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhh-------------------------
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERF-------------------------   56 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~-------------------------   56 (302)
                      |+.+...+...|++++|+.++..+.+.. +-.+..|..+..++...|+...+...                         
T Consensus       119 ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~  197 (966)
T KOG4626|consen  119 YSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAE  197 (966)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhh
Confidence            6667788888899999999999888762 22456777777777776666543321                         


Q ss_pred             ---------------------------------HHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCCchhHHHHH
Q 022131           57 ---------------------------------EKTIRNAEKVFDEMRVRGIEPD-VTSFSIVLHVYSRAHQPQLSLDKL  102 (302)
Q Consensus        57 ---------------------------------~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~  102 (302)
                                                       .|++..|++.|++....  .|+ ...|-.|...|...+.++.|+..+
T Consensus       198 Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y  275 (966)
T KOG4626|consen  198 GRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCY  275 (966)
T ss_pred             cccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHH
Confidence                                             44555555555555544  222 345555555555555556655555


Q ss_pred             HHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCC
Q 022131          103 NFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCV  182 (302)
Q Consensus       103 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  182 (302)
                      .+..... +-....+..+...|...|.++.|+..+++.++... .-+..|+.|..++-..|+..+|.+.+.......  +
T Consensus       276 ~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P-~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~--p  351 (966)
T KOG4626|consen  276 LRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQP-NFPDAYNNLANALKDKGSVTEAVDCYNKALRLC--P  351 (966)
T ss_pred             HHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCC-CchHHHhHHHHHHHhccchHHHHHHHHHHHHhC--C
Confidence            5554432 11333444444455556666666666666665422 224566666666666677777777666666653  3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch-hhHHHH
Q 022131          183 PNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK-VTFETL  261 (302)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l  261 (302)
                      ......+.|...+...|.+++|..+|....+- .+--...++.|...|-++|++++|+..+++.++  +.|+. ..++.+
T Consensus       352 ~hadam~NLgni~~E~~~~e~A~~ly~~al~v-~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~Nm  428 (966)
T KOG4626|consen  352 NHADAMNNLGNIYREQGKIEEATRLYLKALEV-FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNM  428 (966)
T ss_pred             ccHHHHHHHHHHHHHhccchHHHHHHHHHHhh-ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhc
Confidence            44455566666666666666666666665553 111234455566666666666666666665544  34432 334444


Q ss_pred             HHHHhhcchHHHHHHHHHhc
Q 022131          262 YRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       262 ~~~~~~~g~~~~a~~~~~~~  281 (302)
                      -..|...|+.+.|.+.+.+.
T Consensus       429 Gnt~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  429 GNTYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             chHHHHhhhHHHHHHHHHHH
Confidence            44444444444444444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.72  E-value=1.2e-14  Score=113.02  Aligned_cols=253  Identities=19%  Similarity=0.343  Sum_probs=206.9

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI  110 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  110 (302)
                      +-+..++..+|.+.++          .-..+.|.+++++......+.+..+||.+|.+-+-.-+    .+++.+|.....
T Consensus       204 PKT~et~s~mI~Gl~K----------~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm  269 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCK----------FSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKM  269 (625)
T ss_pred             CCCchhHHHHHHHHHH----------HHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhc
Confidence            4467899999999999          88899999999999988788899999999987654333    889999999999


Q ss_pred             CcCHHHHHHHHHHHhccCCHHH----HHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchH-HHHHHHHHHhC----CC-
Q 022131          111 CPTVATYSSVVKCLCSCGRIED----AEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG-AMKLYRQMKED----GL-  180 (302)
Q Consensus       111 ~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~-  180 (302)
                      .||..|+|+++++.++.|+++.    |.+++.+|++.|+.|...+|..+|..+++.+++.+ +..++.++...    .. 
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fk  349 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFK  349 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCccc
Confidence            9999999999999999998765    56788899999999999999999999999998855 34444444322    11 


Q ss_pred             --CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 022131          181 --CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS----GLGPD---LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGL  251 (302)
Q Consensus       181 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  251 (302)
                        -+.+...|...++.|.+..+.+-|.++..-+...    -+.|+   ..-|..+....++....+.....|+.|+-.-+
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y  429 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAY  429 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccee
Confidence              1234556778888899999999998887766542    12333   24466778888899999999999999988778


Q ss_pred             CCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhhcc
Q 022131          252 LPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHF  297 (302)
Q Consensus       252 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~i  297 (302)
                      .|+..+...++++....|.++-..+++..+...|-++...+...++
T Consensus       430 ~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil  475 (625)
T KOG4422|consen  430 FPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEIL  475 (625)
T ss_pred             cCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            8999999999999999999999999999999999887776665544

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

Probab=99.72  E-value=6.3e-15  Score=119.66  Aligned_cols=269  Identities=15%  Similarity=0.111  Sum_probs=225.5

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCccc-HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPN-VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      |+.|-..+-..|+...|++.|++..+.  .|+ ...|-.|-..|..          .+.+++|...|.+..... +....
T Consensus       221 wsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke----------~~~~d~Avs~Y~rAl~lr-pn~A~  287 (966)
T KOG4626|consen  221 WSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKE----------ARIFDRAVSCYLRALNLR-PNHAV  287 (966)
T ss_pred             ehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHH----------HhcchHHHHHHHHHHhcC-Ccchh
Confidence            566777788899999999999999876  443 4578888888888          888999999999988763 23567


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      .+..+...|...|+.+.|+..+++..+.... -...|+.|..++-..|++.+|++.+.+...... ....+.+.|...|.
T Consensus       288 a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~  365 (966)
T KOG4626|consen  288 AHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYR  365 (966)
T ss_pred             hccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHH
Confidence            8888999999999999999999999887532 467899999999999999999999999988643 45778889999999


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a  239 (302)
                      ..|.+++|..+|....+-.  +.-....+.|...|-..|++++|...+++...  ++|+ ...|+.+-..|-..|+.+.|
T Consensus       366 E~~~~e~A~~ly~~al~v~--p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A  441 (966)
T KOG4626|consen  366 EQGKIEEATRLYLKALEVF--PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAA  441 (966)
T ss_pred             HhccchHHHHHHHHHHhhC--hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHH
Confidence            9999999999999998874  44566789999999999999999999999887  5676 46888899999999999999


Q ss_pred             HHHHHHHHHCCCCCch-hhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccc
Q 022131          240 CQYFVEMIEKGLLPQK-VTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSE  291 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  291 (302)
                      ++.+.+.+.  +.|.. ..++.|...|..+|+..+|++-++...+-...+...
T Consensus       442 ~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA  492 (966)
T KOG4626|consen  442 IQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDA  492 (966)
T ss_pred             HHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchh
Confidence            999999887  45653 678889999999999999999999877766655443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.70  E-value=1.2e-13  Score=113.17  Aligned_cols=215  Identities=9%  Similarity=0.028  Sum_probs=150.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHH--HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFS--IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAE  134 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  134 (302)
                      .|+++.|...+.++.+.  .|+.....  .....+...|+++.|...++.+.+.. +-+......+...|.+.|++++|.
T Consensus       131 ~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~  207 (398)
T PRK10747        131 RGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLL  207 (398)
T ss_pred             CCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHH
Confidence            55666666666666654  33332221  22455666666666666666666654 225556666666666666666666


Q ss_pred             HHHHHHHHCCC-----------------------------------------CCChhhHHHHHHHHHccCCchHHHHHHH
Q 022131          135 ELLGEMVRNGV-----------------------------------------CPSAETYNCFFKEYRGRKDANGAMKLYR  173 (302)
Q Consensus       135 ~~~~~~~~~~~-----------------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~  173 (302)
                      +++..+.+.+.                                         +.++.....+...+...|+.++|..++.
T Consensus       208 ~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~  287 (398)
T PRK10747        208 DILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIIL  287 (398)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            66665554322                                         1244455666777888889999999988


Q ss_pred             HHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 022131          174 QMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP  253 (302)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p  253 (302)
                      +..+.   +|+....  ++.+....++.+++.+..+...+. .+-|...+..+...+.+.+++++|.+.|+...+  ..|
T Consensus       288 ~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~-~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P  359 (398)
T PRK10747        288 DGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ-HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRP  359 (398)
T ss_pred             HHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCC
Confidence            88874   5665322  233334558888898888888876 344667788899999999999999999999987  479


Q ss_pred             chhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          254 QKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       254 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      +..++..+...+.+.|+.++|.+++++-.
T Consensus       360 ~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        360 DAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999999999999999999988753

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.68  E-value=5.3e-13  Score=119.20  Aligned_cols=256  Identities=14%  Similarity=0.019  Sum_probs=167.8

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS   83 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (302)
                      .+..++.. +++++|+..+.+....  .|+......+...+..          .|++++|...|+++...  +|+...+.
T Consensus       482 ~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~----------~Gr~eeAi~~~rka~~~--~p~~~a~~  546 (987)
T PRK09782        482 RLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQ----------VEDYATALAAWQKISLH--DMSNEDLL  546 (987)
T ss_pred             HHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHH----------CCCHHHHHHHHHHHhcc--CCCcHHHH
Confidence            33444444 6777788877776655  3554332223333345          66777888888776554  34444556


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK  163 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  163 (302)
                      .+...+.+.|+.++|...+++..+.+ +.+...+..+.....+.|++++|...+++..+..  |+...+..+..++.+.|
T Consensus       547 ~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG  623 (987)
T PRK09782        547 AAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRH  623 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCC
Confidence            66677777888888888888777664 2233333333444445588888888888877653  45777777777888888


Q ss_pred             CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          164 DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       164 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      +.++|...+++.....  +.+...++.+..++...|+.++|...+++..+. .+-+...+..+..++...|++++|...+
T Consensus       624 ~~deA~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l-~P~~~~a~~nLA~al~~lGd~~eA~~~l  700 (987)
T PRK09782        624 NVPAAVSDLRAALELE--PNNSNYQAALGYALWDSGDIAQSREMLERAHKG-LPDDPALIRQLAYVNQRLDDMAATQHYA  700 (987)
T ss_pred             CHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            8888888888887775  566677777777778888888888888877775 2345667777778888888888888888


Q ss_pred             HHHHHCCCCCch-hhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          244 VEMIEKGLLPQK-VTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       244 ~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      ++..+.  .|+. .+.-..........+++.+.+-+++..
T Consensus       701 ~~Al~l--~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~  738 (987)
T PRK09782        701 RLVIDD--IDNQALITPLTPEQNQQRFNFRRLHEEVGRRW  738 (987)
T ss_pred             HHHHhc--CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            887763  4544 233333444555556666666555443

>TIGR00540 hemY_coli hemY protein

Probab=99.67  E-value=3e-13  Score=111.49  Aligned_cols=221  Identities=9%  Similarity=-0.036  Sum_probs=127.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHH---hccCCHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCL---CSCGRIEDA  133 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~---~~~~~~~~a  133 (302)
                      .++++.|...++.+.+.. +-+..+...+...+.+.|+++.|.+.+..+.+.+..++......-..++   ...+..++.
T Consensus       166 ~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~  244 (409)
T TIGR00540       166 QNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEG  244 (409)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            444555555555555543 2234445555555555555555555555555544321111111111111   111111222


Q ss_pred             HHHHHHHHHCCC---CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHH-HHHHHH--HHHhcCCHHHHHHH
Q 022131          134 EELLGEMVRNGV---CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHS-YNILIG--MFMALNRMDMVREI  207 (302)
Q Consensus       134 ~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~--~~~~~~~~~~a~~~  207 (302)
                      .+.+..+.+...   +.+...+..+...+...|+.++|.+.+++..+..   |+... ...++.  .....++.+.+.+.
T Consensus       245 ~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~---pd~~~~~~~~l~~~~~l~~~~~~~~~~~  321 (409)
T TIGR00540       245 IDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL---GDDRAISLPLCLPIPRLKPEDNEKLEKL  321 (409)
T ss_pred             HHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC---CCcccchhHHHHHhhhcCCCChHHHHHH
Confidence            223333222211   1256666777777888888888888888888763   33321 101222  22334667777887


Q ss_pred             HHHHHhCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          208 WNDVKGSGLGPDL--DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       208 ~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      ++...+. .+-|.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++-.
T Consensus       322 ~e~~lk~-~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       322 IEKQAKN-VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHh-CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7776664 22234  55668888889999999999999964444457888888899999999999999999988743

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.66  E-value=3.8e-13  Score=124.37  Aligned_cols=258  Identities=13%  Similarity=0.058  Sum_probs=202.9

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +...+...|++++|++.|++..+.. +-+...+..+...+.+          .|++++|...|+++.+.. +.+...+..
T Consensus       467 ~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~----------~G~~~~A~~~l~~al~~~-P~~~~~~~a  534 (1157)
T PRK11447        467 QAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQ----------AGQRSQADALMRRLAQQK-PNDPEQVYA  534 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence            4456778899999999999998873 2355677778888888          888999999999998763 235555555


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCH---------HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTV---------ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                      +...+...++.++|...++.+......++.         ..+..+...+...|+.++|..+++.     .+.+...+..+
T Consensus       535 ~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~L  609 (1157)
T PRK11447        535 YGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTL  609 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHH
Confidence            666677899999999999886543222221         1233456778899999999999882     24566778888


Q ss_pred             HHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          156 FKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                      ...+...|++++|...|+++.+..  +.+...+..+...+...|+.++|.+.++...+. -+.+...+..+..++...|+
T Consensus       610 a~~~~~~g~~~~A~~~y~~al~~~--P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~-~p~~~~~~~~la~~~~~~g~  686 (1157)
T PRK11447        610 ADWAQQRGDYAAARAAYQRVLTRE--PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT-ANDSLNTQRRVALAWAALGD  686 (1157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-CCCChHHHHHHHHHHHhCCC
Confidence            999999999999999999999986  678889999999999999999999999988765 22355667778888999999


Q ss_pred             HHHHHHHHHHHHHCCC--CC---chhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          236 WKEACQYFVEMIEKGL--LP---QKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       236 ~~~a~~~~~~~~~~~~--~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      +++|.++++++....-  .|   +...+..+...+...|+.++|.+.+++..
T Consensus       687 ~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        687 TAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999986421  22   22456666788899999999999998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.65  E-value=8.8e-13  Score=121.99  Aligned_cols=262  Identities=11%  Similarity=-0.004  Sum_probs=182.0

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH--
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI--   84 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--   84 (302)
                      ..+.+.|++++|++.|+++.+.. +.+...+..+...+..          .|++++|++.|++..+... .+...+..  
T Consensus       359 ~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~----------~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~  426 (1157)
T PRK11447        359 DAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMA----------RKDYAAAERYYQQALRMDP-GNTNAVRGLA  426 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            35667888999999998888762 3355666677777777          6777888888887776531 12222222  


Q ss_pred             ----------------------------------------HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHH
Q 022131           85 ----------------------------------------VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCL  124 (302)
Q Consensus        85 ----------------------------------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  124 (302)
                                                              +...+...|++++|.+.+++..+... -+...+..+...|
T Consensus       427 ~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~  505 (1157)
T PRK11447        427 NLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDL  505 (1157)
T ss_pred             HHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence                                                    23344567888888888888887653 2566777888888


Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCC-------------------------
Q 022131          125 CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG-------------------------  179 (302)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------------  179 (302)
                      .+.|++++|...++++.+... .+...+..+...+...++.++|...++.+....                         
T Consensus       506 ~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~  584 (1157)
T PRK11447        506 RQAGQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLR  584 (1157)
T ss_pred             HHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHH
Confidence            889999999999988876532 233333322223333444444433333221000                         


Q ss_pred             -------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          180 -------------LCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       180 -------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                                   ..+.+...+..+...+.+.|+.++|...+++.... -+.+...+..+...+...|++++|.+.++.+
T Consensus       585 ~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~-~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        585 DSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR-EPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                         01455666777888889999999999999998886 3446788899999999999999999999988


Q ss_pred             HHCCCCC-chhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          247 IEKGLLP-QKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       247 ~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      .+.  .| +..+...+..++...|++++|.++++++.+..
T Consensus       664 l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        664 PAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             hcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            763  34 34556667788889999999999999987654

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

Probab=99.64  E-value=2.9e-12  Score=100.85  Aligned_cols=263  Identities=13%  Similarity=0.068  Sum_probs=193.0

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCC--CCHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIE--PDVTSFSI   84 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~   84 (302)
                      .++....+.+++.+=.+.....|++-+...-+....+...          ..++++|+.+|+++...++-  -|..+|..
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~----------~rDfD~a~s~Feei~knDPYRl~dmdlySN  304 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYN----------QRDFDQAESVFEEIRKNDPYRLDDMDLYSN  304 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhh----------hhhHHHHHHHHHHHHhcCCCcchhHHHHhH
Confidence            3444445666666666666666665444433333333444          67788888888887765311  13344444


Q ss_pred             H-------------------------------HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHH
Q 022131           85 V-------------------------------LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        85 l-------------------------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      +                               .+.|+-.++.++|...|+...+.+.. ....|+.+..-|...++...|
T Consensus       305 ~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AA  383 (559)
T KOG1155|consen  305 VLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAA  383 (559)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHH
Confidence            3                               34566667788999999999888643 677888888899999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          134 EELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .+-++...+..+ .|-..|-.+.++|...+.+.-|+-.|++..+-.  +.|...|.+|..+|.+.++.++|.+.|.....
T Consensus       384 i~sYRrAvdi~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k--PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~  460 (559)
T KOG1155|consen  384 IESYRRAVDINP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELK--PNDSRLWVALGECYEKLNRLEEAIKCYKRAIL  460 (559)
T ss_pred             HHHHHHHHhcCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            999999998754 588899999999999999999999999998886  67889999999999999999999999999888


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCc--hhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          214 SGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLPQ--KVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       214 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .|-. +...+..|...|-+.++..+|...|.+.++.    |...+  .....-|..-+.+.+++++|..+.......
T Consensus       461 ~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~  536 (559)
T KOG1155|consen  461 LGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG  536 (559)
T ss_pred             cccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC
Confidence            7533 6688889999999999999999999887653    32222  222233556667788888887766554443

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

Probab=99.63  E-value=4.1e-15  Score=116.59  Aligned_cols=226  Identities=12%  Similarity=0.065  Sum_probs=115.7

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +.......++++.|++.++++...+.. ++..+..++.. ..          .+++++|.++++...+.  .++...+..
T Consensus        50 ~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~----------~~~~~~A~~~~~~~~~~--~~~~~~l~~  115 (280)
T PF13429_consen   50 LADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQ----------DGDPEEALKLAEKAYER--DGDPRYLLS  115 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccc-ccccccccccc-cc----------ccccccccccccccccc--ccccchhhH
Confidence            334455678999999999999887533 55667777766 56          78889999998887665  356777888


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcC-CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKG-ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK  163 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  163 (302)
                      ++..+.+.++++++..+++.+.... .+.+...|..+...+.+.|+.++|++.+++..+..+ .+......++..+...|
T Consensus       116 ~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P-~~~~~~~~l~~~li~~~  194 (280)
T PF13429_consen  116 ALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDP-DDPDARNALAWLLIDMG  194 (280)
T ss_dssp             --H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-T-T-HHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCC
Confidence            9999999999999999999987543 345778899999999999999999999999998743 35788899999999999


Q ss_pred             CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          164 DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       164 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      +.+++..++....+..  +.|...+..+..++...|+.++|...+++..+. .+.|......+..++...|+.++|.++.
T Consensus       195 ~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~  271 (280)
T PF13429_consen  195 DYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLR  271 (280)
T ss_dssp             HHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHT------------
T ss_pred             ChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhccccccccccccccccccc-cccccccccccccccccccccccccccc
Confidence            9999999999888875  456677889999999999999999999998885 3458888899999999999999999998


Q ss_pred             HHHHH
Q 022131          244 VEMIE  248 (302)
Q Consensus       244 ~~~~~  248 (302)
                      ++..+
T Consensus       272 ~~~~~  276 (280)
T PF13429_consen  272 RQALR  276 (280)
T ss_dssp             -----
T ss_pred             ccccc
Confidence            87653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.63  E-value=1.4e-12  Score=99.41  Aligned_cols=204  Identities=12%  Similarity=0.037  Sum_probs=169.8

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      .....+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+... .+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHH
Confidence            345677888899999999999999999998764 33677888899999999999999999999988753 4567788888


Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW  236 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  236 (302)
                      ..+...|++++|...+.+.......+.....+..+...+...|++++|...+.+..... +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            99999999999999999998754213345667778889999999999999999988763 33567888899999999999


Q ss_pred             HHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          237 KEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       237 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+.+.
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999999876 3445667777788888999999999998876543

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.62  E-value=2.7e-12  Score=114.72  Aligned_cols=232  Identities=9%  Similarity=0.012  Sum_probs=184.3

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      +...|..+..++..           ++.++|...+.+....  .|+......+...+...|++++|...++++...  +|
T Consensus       476 ~~~a~~~LG~~l~~-----------~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p  540 (987)
T PRK09782        476 DAAAWNRLAKCYRD-----------TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DM  540 (987)
T ss_pred             CHHHHHHHHHHHHh-----------CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CC
Confidence            45566666655543           4567788888888776  466554444555667899999999999998665  44


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +...+..+..++.+.|+.++|...+++..+... .+...+..+.......|++++|...+++..+.   .|+...+..+.
T Consensus       541 ~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P-~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA  616 (987)
T PRK09782        541 SNEDLLAAANTAQAAGNGAARDRWLQQAEQRGL-GDNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARA  616 (987)
T ss_pred             CcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHH
Confidence            555667778888999999999999999988642 33334444444555679999999999999987   46788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-chhhHHHHHHHHhhcchH
Q 022131          193 GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-QKVTFETLYRGLIQSDML  271 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  271 (302)
                      .++.+.|+.++|...+++..... +.+...++.+..++...|++++|+..+++..+.  .| +...+..+..++...|++
T Consensus       617 ~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~  693 (987)
T PRK09782        617 TIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDM  693 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCH
Confidence            99999999999999999999873 446778888888999999999999999999874  44 567788899999999999


Q ss_pred             HHHHHHHHhccccCC
Q 022131          272 RTWRRLKKKLDEESI  286 (302)
Q Consensus       272 ~~a~~~~~~~~~~~~  286 (302)
                      ++|...+++..+...
T Consensus       694 ~eA~~~l~~Al~l~P  708 (987)
T PRK09782        694 AATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHHHHHhcCC
Confidence            999999999876543

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

Probab=99.61  E-value=6.8e-12  Score=94.52  Aligned_cols=225  Identities=14%  Similarity=0.065  Sum_probs=171.8

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC---HHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD---VTSFSIVLH   87 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~   87 (302)
                      -..+.++|.++|-+|.+.. +-+..+--+|-+.|-+          .|..+.|+++.+.+..+.--+.   ......|.+
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRs----------RGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~  115 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRS----------RGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGR  115 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHh----------cchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHH
Confidence            3578899999999998751 2233344445555555          8899999999999887521111   234556777


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC----hhhHHHHHHHHHccC
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS----AETYNCFFKEYRGRK  163 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~  163 (302)
                      -|...|-+|.|+++|..+.+.+. .-......|+..|-...+|++|+++-+++.+.+..+.    ...|..+...+....
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            88889999999999999988652 3566788899999999999999999998888765443    235566666667778


Q ss_pred             CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          164 DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       164 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      +.+.|...+.+..+.+  +..+..-..+.+.....|+++.|.+.|+.+.+.+..--..+...|..+|.+.|+.++....+
T Consensus       195 ~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL  272 (389)
T COG2956         195 DVDRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFL  272 (389)
T ss_pred             hHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            8888999999888876  55666666777888889999999999999988765556678888889999999999888888


Q ss_pred             HHHHHC
Q 022131          244 VEMIEK  249 (302)
Q Consensus       244 ~~~~~~  249 (302)
                      .++.+.
T Consensus       273 ~~~~~~  278 (389)
T COG2956         273 RRAMET  278 (389)
T ss_pred             HHHHHc
Confidence            887664

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

Probab=99.60  E-value=1.7e-11  Score=94.91  Aligned_cols=257  Identities=12%  Similarity=0.130  Sum_probs=201.2

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      -.|+|.+|+++..+-.+.+-.| ...|..-..+.-.          .|+.+.+-.++.+.-+..-.++....-+..+...
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~q----------rgd~~~an~yL~eaae~~~~~~l~v~ltrarlll  164 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQ----------RGDEDRANRYLAEAAELAGDDTLAVELTRARLLL  164 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHh----------cccHHHHHHHHHHHhccCCCchHHHHHHHHHHHH
Confidence            3689999999999987775333 2344444445555          7888999999999887644566777778888889


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-------hhhHHHHHHHHHccC
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS-------AETYNCFFKEYRGRK  163 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~  163 (302)
                      ..|+.+.|..-+.++.+.+.. .........++|.+.|++.+...++..+.+.|.-.+       ..+|..+++-....+
T Consensus       165 ~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~  243 (400)
T COG3071         165 NRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDN  243 (400)
T ss_pred             hCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccc
Confidence            999999999999999888644 677889999999999999999999999998876444       346677777666666


Q ss_pred             CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-------------------------
Q 022131          164 DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP-------------------------  218 (302)
Q Consensus       164 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------------------  218 (302)
                      ..+.-...|+.....-  +.++..-..++.-+.+.|+.++|.++..+..+++..|                         
T Consensus       244 ~~~gL~~~W~~~pr~l--r~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l  321 (400)
T COG3071         244 GSEGLKTWWKNQPRKL--RNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWL  321 (400)
T ss_pred             cchHHHHHHHhccHHh--hcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHH
Confidence            6666666777665553  4556666777777888888888888877766554322                         


Q ss_pred             -----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          219 -----DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       219 -----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                           ++-.+..|-..|.+++.+.+|...|+...+  ..|+..+|..+..++.+.|+..+|.++.++-.-
T Consensus       322 ~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         322 KQHPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                 456778888999999999999999998776  579999999999999999999999999887553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.60  E-value=4.3e-12  Score=104.19  Aligned_cols=221  Identities=10%  Similarity=0.020  Sum_probs=164.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHH--HHHHHHHhccCCHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATY--SSVVKCLCSCGRIEDAE  134 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~ll~~~~~~~~~~~a~  134 (302)
                      .|+++.|++.+.......-.| ...+-.......+.|+++.|...+.++.+.  .|+....  ......+...|++++|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            588899998888766552222 223333355558899999999999999876  3454332  24467889999999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC-------------------------------
Q 022131          135 ELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP-------------------------------  183 (302)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------------------------  183 (302)
                      ..++++.+..+ -++.....+...|...|+++++.+++..+.+.....+                               
T Consensus       174 ~~l~~~~~~~P-~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVAP-RHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcCC-CCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            99999998864 4678888999999999999999999888886653111                               


Q ss_pred             ---------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-
Q 022131          184 ---------NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-  253 (302)
Q Consensus       184 ---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-  253 (302)
                               ++.....+...+...|+.++|.+++++..+.  +|+....  ++.+....++.+++.+..+...+.  .| 
T Consensus       253 ~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~P~  326 (398)
T PRK10747        253 KNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--HGD  326 (398)
T ss_pred             HhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--CCC
Confidence                     2223345567777889999999999888774  4555322  233334568999999999988765  45 


Q ss_pred             chhhHHHHHHHHhhcchHHHHHHHHHhccccCCC
Q 022131          254 QKVTFETLYRGLIQSDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       254 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  287 (302)
                      |...+..+.+.|.+.+++++|.+.|+...+...+
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~  360 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD  360 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            4456778889999999999999999998876543

>PRK12370 invasion protein regulator; Provisional

Probab=99.60  E-value=7.1e-12  Score=107.25  Aligned_cols=260  Identities=11%  Similarity=0.079  Sum_probs=185.1

Q ss_pred             CCcchHHHHHHHHHhCCCccc-HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 022131           13 NRIDMAERFLGEMIERGVEPN-VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR   91 (302)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   91 (302)
                      +++++|.++|++..+.  .|+ ...|..+..++...+...... -.+++++|...+++..+.+ +-+...+..+...+..
T Consensus       275 ~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~-~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~  350 (553)
T PRK12370        275 YSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFD-KQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTI  350 (553)
T ss_pred             HHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcc-cchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            3467899999999876  444 445555555444322110000 0467899999999999875 3377888888899999


Q ss_pred             cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHH
Q 022131           92 AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKL  171 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  171 (302)
                      .|++++|...+++..+.+ +.+...+..+...+...|++++|...+++..+.... +...+..++..+...|++++|...
T Consensus       351 ~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        351 HSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             ccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHH
Confidence            999999999999999886 336778888999999999999999999999987543 223334445556778999999999


Q ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-
Q 022131          172 YRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEK-  249 (302)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  249 (302)
                      ++++..... +.+...+..+..++...|+.++|...+.++...  .|+ ....+.+...|...|  ++|...++.+.+. 
T Consensus       429 ~~~~l~~~~-p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~  503 (553)
T PRK12370        429 GDELRSQHL-QDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESE  503 (553)
T ss_pred             HHHHHHhcc-ccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHh
Confidence            999887641 234556777888889999999999999987664  333 444555666667777  5888888877653 


Q ss_pred             CCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          250 GLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       250 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      .-.|...-+  +-..+.-.|+.+.+..+ +++.+.+.
T Consensus       504 ~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        504 QRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             hHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccch
Confidence            223333333  34446666777777666 77776654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.59  E-value=1.7e-11  Score=108.85  Aligned_cols=277  Identities=12%  Similarity=0.053  Sum_probs=193.6

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhh--------------------------
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERF--------------------------   56 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~--------------------------   56 (302)
                      ..+..++...|+.++|+..++++.+.. +-+...+..+...+...+...++...                          
T Consensus       120 ~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~  198 (765)
T PRK10049        120 LALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLS  198 (765)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhh
Confidence            345667778888888888888888762 22344444445444443332211100                          


Q ss_pred             -------HHHH---HHHHHHHHHHHhc-CCCCCHH-HH----HHHHHHHHhcCCchhHHHHHHHHHhcCCC-cCHHHHHH
Q 022131           57 -------EKTI---RNAEKVFDEMRVR-GIEPDVT-SF----SIVLHVYSRAHQPQLSLDKLNFMKEKGIC-PTVATYSS  119 (302)
Q Consensus        57 -------~~~~---~~a~~~~~~~~~~-~~~~~~~-~~----~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  119 (302)
                             .+++   ++|++.++.+.+. ...|+.. .+    ...+..+...|++++|...|+.+.+.+.+ |+. ....
T Consensus       199 ~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~  277 (765)
T PRK10049        199 FMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRW  277 (765)
T ss_pred             cccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHH
Confidence                   1122   5677777777753 1222221 11    11133456779999999999999887632 322 2233


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC----------CCCC--
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCP---SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL----------CVPN--  184 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~--  184 (302)
                      +...|...|++++|+..|+++.+.....   .......+..++...|++++|...++.+.....          ..|+  
T Consensus       278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~  357 (765)
T PRK10049        278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDD  357 (765)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCch
Confidence            5778999999999999999988653211   134566677788999999999999999987630          0123  


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc-hhhHHHHH
Q 022131          185 -MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ-KVTFETLY  262 (302)
Q Consensus       185 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~  262 (302)
                       ...+..+...+...|+.++|.++++++... .+.+...+..+...+...|++++|++.+++..+.  .|+ ...+....
T Consensus       358 ~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a  434 (765)
T PRK10049        358 WLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQA  434 (765)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHH
Confidence             234566778888999999999999999876 4557888999999999999999999999999874  465 45666667


Q ss_pred             HHHhhcchHHHHHHHHHhcccc
Q 022131          263 RGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ..+...|++++|..+++++.+.
T Consensus       435 ~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        435 WTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh
Confidence            7888999999999999888754

>PRK12370 invasion protein regulator; Provisional

Probab=99.59  E-value=9e-12  Score=106.62  Aligned_cols=238  Identities=10%  Similarity=-0.030  Sum_probs=174.6

Q ss_pred             ccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh---------cCCchhHHHHH
Q 022131           32 PNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR---------AHQPQLSLDKL  102 (302)
Q Consensus        32 ~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~  102 (302)
                      .+...|...+.+........     .+.+++|...|++..+... -+...|..+..++..         .+++++|...+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~-----~~~~~~A~~~~~~Al~ldP-~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~  327 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYT-----PYSLQQALKLLTQCVNMSP-NSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHA  327 (553)
T ss_pred             CChHHHHHHHHhHHHHHccC-----HHHHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHH
Confidence            34556666666643321111     5678899999999998742 245566666655442         24478999999


Q ss_pred             HHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCC
Q 022131          103 NFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCV  182 (302)
Q Consensus       103 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  182 (302)
                      ++..+.+. -+...+..+...+...|++++|...|++..+.+. .+...+..+...+...|++++|...+++..+..  +
T Consensus       328 ~~Al~ldP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P  403 (553)
T PRK12370        328 IKATELDH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLSP-ISADIKYYYGWNLFMAGQLEEALQTINECLKLD--P  403 (553)
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--C
Confidence            99998863 3778888888899999999999999999998753 456788888999999999999999999999885  3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchh-hHHHH
Q 022131          183 PNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKV-TFETL  261 (302)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l  261 (302)
                      .+...+..++..+...|++++|...+++......+-+...+..+..++...|++++|...+.++...  .|+.. ....+
T Consensus       404 ~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l  481 (553)
T PRK12370        404 TRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLL  481 (553)
T ss_pred             CChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHH
Confidence            3444444455556778999999999999876532224556777888889999999999999987653  44443 34445


Q ss_pred             HHHHhhcchHHHHHHHHHhccc
Q 022131          262 YRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       262 ~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ...+...|+  ++...++.+.+
T Consensus       482 ~~~~~~~g~--~a~~~l~~ll~  501 (553)
T PRK12370        482 YAEYCQNSE--RALPTIREFLE  501 (553)
T ss_pred             HHHHhccHH--HHHHHHHHHHH
Confidence            556677774  67776666554

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

Probab=99.58  E-value=9.6e-13  Score=107.80  Aligned_cols=202  Identities=11%  Similarity=-0.020  Sum_probs=163.2

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      -.+.+|..+..+|.-.++.+.|++.|++..+.+.. ...+|+.+..-+.....+|.|...|+..+.... -+-.+|.-+.
T Consensus       419 ~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~-rhYnAwYGlG  496 (638)
T KOG1126|consen  419 NSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDP-RHYNAWYGLG  496 (638)
T ss_pred             CCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc-hhhHHHHhhh
Confidence            35678999999999999999999999999887522 677888888888888899999999998876432 2445566677


Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW  236 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  236 (302)
                      ..|.+.++.+.|+-.|+...+-+  +.+.+....+...+.+.|+.|+|++++++...... .|+..--.-+..+...+++
T Consensus       497 ~vy~Kqek~e~Ae~~fqkA~~IN--P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~  573 (638)
T KOG1126|consen  497 TVYLKQEKLEFAEFHFQKAVEIN--PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRY  573 (638)
T ss_pred             hheeccchhhHHHHHHHhhhcCC--ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcch
Confidence            88999999999999999999887  67788888888899999999999999999887643 3555555566777788999


Q ss_pred             HHHHHHHHHHHHCCCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          237 KEACQYFVEMIEKGLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       237 ~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ++|+..++++++  +.|+ ...|..+.+.|.+.|+.+.|..-|.-+.+..
T Consensus       574 ~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  574 VEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            999999999988  4565 4667777889999999999988776554433

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.58  E-value=8.3e-12  Score=95.21  Aligned_cols=202  Identities=11%  Similarity=0.035  Sum_probs=169.5

Q ss_pred             ccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCC
Q 022131           32 PNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGIC  111 (302)
Q Consensus        32 ~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  111 (302)
                      .....+..+...+..          .+++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+... 
T Consensus        29 ~~~~~~~~la~~~~~----------~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-   96 (234)
T TIGR02521        29 KAAKIRVQLALGYLE----------QGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-   96 (234)
T ss_pred             cHHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-
Confidence            345677777888888          788999999999998764 33577888899999999999999999999988753 


Q ss_pred             cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHH
Q 022131          112 PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNI  190 (302)
Q Consensus       112 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  190 (302)
                      .+...+..+...+...|++++|...+++...... ......+..+...+...|++++|...+.+.....  +.+...+..
T Consensus        97 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~  174 (234)
T TIGR02521        97 NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLE  174 (234)
T ss_pred             CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHH
Confidence            3667888889999999999999999999987532 2234567778888999999999999999998875  556778889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          191 LIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +...+...|++++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       175 la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       175 LAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999999999999999998876 345677777888888999999999999888765

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=99.57  E-value=7.9e-12  Score=103.12  Aligned_cols=265  Identities=9%  Similarity=-0.002  Sum_probs=185.4

Q ss_pred             HhcCCcchHHHHHHHHHhCCCcccHHHH-HHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 022131           10 CKINRIDMAERFLGEMIERGVEPNVVTY-NVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHV   88 (302)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   88 (302)
                      ...|+++.|.+.+....+.  .|+...+ -....+...          .|+.+.|.+.+++..+....+.....-.....
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~----------~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l  162 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQ----------RGDEARANQHLEEAAELAGNDNILVEIARTRI  162 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHhCCcCchHHHHHHHHH
Confidence            3579999999999887775  4544333 333445555          78899999999998775322222344445788


Q ss_pred             HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHH-HHHHHH---HccCC
Q 022131           89 YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYN-CFFKEY---RGRKD  164 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~  164 (302)
                      +...|+++.|...++.+.+.. +-+..++..+...+.+.|++++|.+.++.+.+.+.. +...+. .-..++   ...+.
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999999999986 337778999999999999999999999999998753 333332 111222   23333


Q ss_pred             chHHHHHHHHHHhCCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHH--HHHcCCHHHH
Q 022131          165 ANGAMKLYRQMKEDGL--CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSY-TMLIHG--LCEKQKWKEA  239 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~--~~~~g~~~~a  239 (302)
                      .+++.+.+..+.+...  .+.+...+..+...+...|+.++|.+++++..+..  |+.... ..++..  ....++.+.+
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~  318 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKL  318 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHH
Confidence            3333445555544420  02478889999999999999999999999999863  443311 012222  2445788899


Q ss_pred             HHHHHHHHHCCCCCch---hhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccch
Q 022131          240 CQYFVEMIEKGLLPQK---VTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEF  292 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  292 (302)
                      .+.+++..+.  .|+.   ....++...+.+.|++++|.+.+++.......|+...
T Consensus       319 ~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~  372 (409)
T TIGR00540       319 EKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND  372 (409)
T ss_pred             HHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH
Confidence            9999888764  4544   4556788999999999999999996544444555544

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.

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.57  E-value=2e-11  Score=108.40  Aligned_cols=263  Identities=11%  Similarity=0.052  Sum_probs=177.2

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      .+......|+.++|++++...... .+.+...+..+...+..          .+++++|..+|++..+.. +.+...+..
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~-~~~~a~~~~~lA~~~~~----------~g~~~~A~~~~~~al~~~-P~~~~a~~~   88 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVH-MQLPARGYAAVAVAYRN----------LKQWQNSLTLWQKALSLE-PQNDDYQRG   88 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            355667778888888888887752 14455567777777777          777788888888877763 334566677


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      +...+...|++++|...++++.+.. +.+.. +..+..++...|+.++|+..++++.+..+ .+...+..+..++...+.
T Consensus        89 la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         89 LILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCC
Confidence            7778888888888888888887763 33555 77777788888888888888888887643 244444555555555555


Q ss_pred             chHHH----------------------------------------------HHHHHHHhCCCCCCCHH-HHH----HHHH
Q 022131          165 ANGAM----------------------------------------------KLYRQMKEDGLCVPNMH-SYN----ILIG  193 (302)
Q Consensus       165 ~~~a~----------------------------------------------~~~~~~~~~~~~~~~~~-~~~----~l~~  193 (302)
                      .+.|+                                              ..++.+.+.....|+.. .+.    ..+.
T Consensus       166 ~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~  245 (765)
T PRK10049        166 SAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLG  245 (765)
T ss_pred             hHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHH
Confidence            44444                                              34444443210022211 111    1123


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc-----hhhHHHHHHHHhh
Q 022131          194 MFMALNRMDMVREIWNDVKGSGLG-PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ-----KVTFETLYRGLIQ  267 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~  267 (302)
                      .+...|++++|...|+.+.+.+.+ |+. .-..+..+|...|++++|...|+++.+..  |.     ......+..++..
T Consensus       246 ~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~--p~~~~~~~~~~~~L~~a~~~  322 (765)
T PRK10049        246 ALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHP--ETIADLSDEELADLFYSLLE  322 (765)
T ss_pred             HHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcC--CCCCCCChHHHHHHHHHHHh
Confidence            445778999999999999887532 322 22225778899999999999999987642  22     2446667778899


Q ss_pred             cchHHHHHHHHHhccccC
Q 022131          268 SDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       268 ~g~~~~a~~~~~~~~~~~  285 (302)
                      .|++++|.++++++.+..
T Consensus       323 ~g~~~eA~~~l~~~~~~~  340 (765)
T PRK10049        323 SENYPGALTVTAHTINNS  340 (765)
T ss_pred             cccHHHHHHHHHHHhhcC
Confidence            999999999999888654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.56  E-value=2.3e-11  Score=106.79  Aligned_cols=224  Identities=14%  Similarity=0.117  Sum_probs=140.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .|++++|+++|+++.+.... +...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|+..
T Consensus       115 ~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        115 EKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             cCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHH
Confidence            46667777777777766422 4555556666677777777777777776655  34444444444444445555557777


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHH-------------------------------------------
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYR-------------------------------------------  173 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-------------------------------------------  173 (302)
                      ++++.+... .+...+..+..+..+.|-...|.++..                                           
T Consensus       192 ~ekll~~~P-~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~a  270 (822)
T PRK14574        192 SSEAVRLAP-TSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKA  270 (822)
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            777776632 344555555555555444333332222                                           


Q ss_pred             -----HHHhCCCCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          174 -----QMKEDGLCVPNM-HSY----NILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       174 -----~~~~~~~~~~~~-~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                           .+...-...|.. ..|    .-.+-++...|++.++++.++.+...+.+....+-..+.++|...+++++|..++
T Consensus       271 la~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~  350 (822)
T PRK14574        271 LADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPIL  350 (822)
T ss_pred             HHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence                 222110001211 111    2234466678888899999999888776545567788899999999999999999


Q ss_pred             HHHHHCC-----CCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          244 VEMIEKG-----LLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       244 ~~~~~~~-----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      +.+....     ..++......|.-++..++++++|..+++++.+.
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~  396 (822)
T PRK14574        351 SSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQ  396 (822)
T ss_pred             HHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            9986542     1223344577899999999999999999999874

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

Probab=99.54  E-value=4.9e-13  Score=112.74  Aligned_cols=248  Identities=20%  Similarity=0.210  Sum_probs=161.7

Q ss_pred             HHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHH
Q 022131           20 RFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSL   99 (302)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   99 (302)
                      .++..+...|+.|+..||..++..|+.          .|+++.|- +|.-|.....+.+...|+.++.+....++.+.+.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~----------~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCT----------KGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcc----------cCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC
Confidence            567788889999999999999999999          55555565 7888887777778888999999988888887776


Q ss_pred             HHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHH---HHHHHHHHHH----CCCCCChhhH---------------HHHHH
Q 022131          100 DKLNFMKEKGICPTVATYSSVVKCLCSCGRIED---AEELLGEMVR----NGVCPSAETY---------------NCFFK  157 (302)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~----~~~~~~~~~~---------------~~l~~  157 (302)
                                 .|...||+.+..+|...||+..   +.+.+..+..    .|.. ...-|               ...+.
T Consensus        80 -----------ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvg-s~e~~fl~k~~c~p~~lpda~n~il  147 (1088)
T KOG4318|consen   80 -----------EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVG-SPERWFLMKIHCCPHSLPDAENAIL  147 (1088)
T ss_pred             -----------CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccC-cHHHHHHhhcccCcccchhHHHHHH
Confidence                       5778899999999999988755   2222222211    2221 11111               12222


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      .....|.++.+++++..+.......|...    +++-+...  +....++........-.|+..+|..++.+-..+|+.+
T Consensus       148 llv~eglwaqllkll~~~Pvsa~~~p~~v----fLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d  221 (1088)
T KOG4318|consen  148 LLVLEGLWAQLLKLLAKVPVSAWNAPFQV----FLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVD  221 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhCCcccccchHHH----HHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchh
Confidence            23334444444444444333221111111    23332222  2233344443333222578888888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhhcccC
Q 022131          238 EACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNYHFKP  299 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~i~~  299 (302)
                      .|..++.+|.+.|++.+..-|..|+-+   .++...++.+++.|.+.|+.|+++++...+.|
T Consensus       222 ~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip  280 (1088)
T KOG4318|consen  222 GAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIP  280 (1088)
T ss_pred             hHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHh
Confidence            888888888888888877777777655   77777788888888888888888877665544

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

Probab=99.52  E-value=1.8e-11  Score=96.65  Aligned_cols=256  Identities=11%  Similarity=0.053  Sum_probs=190.4

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHH-HHHHHhccc-CCcchh------------------------hHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVL-LNGVCRRAS-LHPSER------------------------FEKTI   60 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-l~~~~~~~~-~~~~~~------------------------~~~~~   60 (302)
                      ..+.+.|+++.|++++.-+.+..-+.-...-+.| +--+.+.|+ +..+..                        ..|++
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcH
Confidence            3578999999999999888765322222221211 111111111 000000                        17888


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEM  140 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  140 (302)
                      ++|.+.|++....+..-....||+ .-.+-..|++++|+..|-++... +.-+..+...+.+.|-...+..+|++++.+.
T Consensus       507 dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            999999999887643322333443 33466789999999998887554 2236778888899999999999999999887


Q ss_pred             HHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 022131          141 VRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL  220 (302)
Q Consensus       141 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  220 (302)
                      ... ++.|+...+.+...|-+.|+...|.+.+-.-.+--  +.+..+...|...|....-++++...|++..-  ++|+.
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyryf--p~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~  659 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYF--PCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQ  659 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccccc--CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccH
Confidence            654 55678889999999999999999998877665553  77899999999999999999999999998765  68999


Q ss_pred             HHHHHHHHHH-HHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcch
Q 022131          221 DSYTMLIHGL-CEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDM  270 (302)
Q Consensus       221 ~~~~~li~~~-~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  270 (302)
                      .-|..++..| .+.|++.+|.++++...++ ++-|......|++.+...|.
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            9999888766 5689999999999998765 77788899999998887774

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.51  E-value=1.8e-10  Score=101.27  Aligned_cols=90  Identities=11%  Similarity=0.035  Sum_probs=53.4

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIV   85 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   85 (302)
                      ...+...|++++|+++|+++.+.. +-+...+..+...+..          .++.++|++.++++...  .|+...+..+
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~----------~~q~~eAl~~l~~l~~~--dp~~~~~l~l  175 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQAD----------AGRGGVVLKQATELAER--DPTVQNYMTL  175 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhh----------cCCHHHHHHHHHHhccc--CcchHHHHHH
Confidence            446777799999999999998873 2345566666666666          55556666666666554  3344444333


Q ss_pred             HHHHHhcCCchhHHHHHHHHHhc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEK  108 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~  108 (302)
                      +..+...++..+|++.++++.+.
T Consensus       176 ayL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        176 SYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHh
Confidence            33333334444466666665554

>PF13041 PPR_2: PPR repeat family

Probab=99.51  E-value=7.3e-14  Score=78.36  Aligned_cols=49  Identities=39%  Similarity=0.754  Sum_probs=33.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHh
Q 022131          218 PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLI  266 (302)
Q Consensus       218 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  266 (302)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++++|+
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            5666677777777777777777777777766677777777777766665

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

Probab=99.50  E-value=2.4e-10  Score=86.35  Aligned_cols=261  Identities=14%  Similarity=0.145  Sum_probs=195.4

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccH------HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCC
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNV------VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEP   77 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~   77 (302)
                      +|-+.|.+.|.+|+|+.+.+.+.++   ||.      .....|..-|..          .|-++.|+.+|..+.+.+ .-
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~----------aGl~DRAE~~f~~L~de~-ef  139 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMA----------AGLLDRAEDIFNQLVDEG-EF  139 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHH----------hhhhhHHHHHHHHHhcch-hh
Confidence            4667788999999999999999876   332      223334444555          788999999999998864 22


Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTV----ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYN  153 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (302)
                      -......|+..|-...+|++|+++-+++.+.+..+..    ..|.-+...+....+++.|..++.+..+.+. .....-.
T Consensus       140 a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~-~cvRAsi  218 (389)
T COG2956         140 AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADK-KCVRASI  218 (389)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCc-cceehhh
Confidence            4567788999999999999999999999888655432    2355566666677899999999999988754 3555666


Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK  233 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  233 (302)
                      .+.+.....|+++.|.+.++.+.+.+. .--..+...|..+|...|+.++...++..+.+..  +....-..+...-...
T Consensus       219 ~lG~v~~~~g~y~~AV~~~e~v~eQn~-~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~  295 (389)
T COG2956         219 ILGRVELAKGDYQKAVEALERVLEQNP-EYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGADAELMLADLIELQ  295 (389)
T ss_pred             hhhHHHHhccchHHHHHHHHHHHHhCh-HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHh
Confidence            677889999999999999999999863 3445677889999999999999999999988853  4444445555554455


Q ss_pred             CCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhh---cchHHHHHHHHHhcccc
Q 022131          234 QKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQ---SDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       234 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~  284 (302)
                      .-.+.|...+.+-..+  .|+...+..++..-..   .|...+-...++.|...
T Consensus       296 ~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         296 EGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             hChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            5566677766655553  6999999999987663   34455555566666543

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

Probab=99.50  E-value=1e-11  Score=93.90  Aligned_cols=230  Identities=16%  Similarity=0.119  Sum_probs=169.8

Q ss_pred             HHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHH
Q 022131           38 NVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATY  117 (302)
Q Consensus        38 ~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  117 (302)
                      +.+-++|.+          .|.+.+|.+-|+.....  .|-+.||-.|-+.|.+..++..|+.++.+-.+. .+.++...
T Consensus       227 ~Q~gkCylr----------Lgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l  293 (478)
T KOG1129|consen  227 QQMGKCYLR----------LGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYL  293 (478)
T ss_pred             HHHHHHHHH----------hcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhh
Confidence            556667777          77777888888777766  567778888888888888888888888887765 23344444


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh
Q 022131          118 SSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA  197 (302)
Q Consensus       118 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (302)
                      .-+.+.+-..++.++|.++++...+... .+.....++...|.-.++++-|+++++++.+.|  ..++..|+.+.-+|.-
T Consensus       294 ~g~ARi~eam~~~~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG--~~speLf~NigLCC~y  370 (478)
T KOG1129|consen  294 LGQARIHEAMEQQEDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMG--AQSPELFCNIGLCCLY  370 (478)
T ss_pred             hhhHHHHHHHHhHHHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhc--CCChHHHhhHHHHHHh
Confidence            5666777777888888888888877633 466677777777888888888888888888888  4677788888888888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHH
Q 022131          198 LNRMDMVREIWNDVKGSGLGPD--LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWR  275 (302)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  275 (302)
                      .+++|.++.-|++....-..|+  ...|-.+-...+..||+..|.+.|+-....+ .-+...++.|.-.-.+.|++++|.
T Consensus       371 aqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Ar  449 (478)
T KOG1129|consen  371 AQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGAR  449 (478)
T ss_pred             hcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHH
Confidence            8888888888888776544344  3456667777777888888888888776542 234567777777777888888888


Q ss_pred             HHHHhcccc
Q 022131          276 RLKKKLDEE  284 (302)
Q Consensus       276 ~~~~~~~~~  284 (302)
                      .+++.....
T Consensus       450 sll~~A~s~  458 (478)
T KOG1129|consen  450 SLLNAAKSV  458 (478)
T ss_pred             HHHHHhhhh
Confidence            887765543

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

Probab=99.49  E-value=6.3e-12  Score=94.97  Aligned_cols=212  Identities=12%  Similarity=0.044  Sum_probs=177.6

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      |...-+-+.++|.+.|.+.+|.+.++..++.  .|-+.||..|-+.|.+..++..|+.++.+-.+. .+.+.....-+.+
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~AR  298 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQAR  298 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHH
Confidence            4444577899999999999999999988876  456779999999999999999999999998876 3345555566778


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      .+-..++.+++.++++...+..  +.++.....+...|.-.++++.|...++++.+.|+. ++..|+.+.-+|.-.+++|
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~--~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLH--PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcC--CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            8999999999999999999886  678888888888899999999999999999999875 8899999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCch--hhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhh
Q 022131          238 EACQYFVEMIEKGLLPQK--VTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNY  295 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  295 (302)
                      .++.-|++....--.|+.  .+|-.+-......|++.-|.+.|+......-.-+..+.+.
T Consensus       376 ~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNL  435 (478)
T KOG1129|consen  376 LVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNL  435 (478)
T ss_pred             hhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhH
Confidence            999999999876444543  5677788888899999999999887766655544444443

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

Probab=99.48  E-value=9e-11  Score=92.69  Aligned_cols=222  Identities=11%  Similarity=0.044  Sum_probs=184.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCC--cCHHHHHHHH-------------
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGIC--PTVATYSSVV-------------  121 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll-------------  121 (302)
                      ....+++..-.+...+.|++-+...-+....+.....|+++|+.+|+++.+..+-  -|..+|..++             
T Consensus       240 l~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA  319 (559)
T KOG1155|consen  240 LHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLA  319 (559)
T ss_pred             HHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHH
Confidence            3466777777778888887766666666666677788999999999999887421  1444554433             


Q ss_pred             ------------------HHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC
Q 022131          122 ------------------KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP  183 (302)
Q Consensus       122 ------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  183 (302)
                                        +-|+-.++.++|...|++..+.+. .....|+.+..-|....+...|.+-++...+-+  +.
T Consensus       320 ~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~--p~  396 (559)
T KOG1155|consen  320 QNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN--PR  396 (559)
T ss_pred             HHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC--ch
Confidence                              234556788999999999998754 467889999999999999999999999999986  88


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHH
Q 022131          184 NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYR  263 (302)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  263 (302)
                      |-..|-.|.++|.-.+...-|+-.|++.... -+-|...|..|..+|.+.++.++|++.|......|- .+...+..|.+
T Consensus       397 DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~Lak  474 (559)
T KOG1155|consen  397 DYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAK  474 (559)
T ss_pred             hHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHH
Confidence            9999999999999999999999999999886 345889999999999999999999999999988753 36688999999


Q ss_pred             HHhhcchHHHHHHHHHhccc
Q 022131          264 GLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~  283 (302)
                      .+.+.++.++|.+.+++-.+
T Consensus       475 Lye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHH
Confidence            99999999999999887655

>PF13041 PPR_2: PPR repeat family

Probab=99.47  E-value=1.8e-13  Score=76.72  Aligned_cols=49  Identities=31%  Similarity=0.589  Sum_probs=28.0

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHh
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLC  125 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  125 (302)
                      ||..+||++|++|++.|++++|.++|++|.+.|+.||..||+.++++|+
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

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

Probab=99.41  E-value=6.7e-10  Score=80.15  Aligned_cols=199  Identities=11%  Similarity=-0.022  Sum_probs=169.7

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +...|.-.|...|+...|..-+++.+++.. .+..+|..+...|.+.|+.+.|.+.|++...... -+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DP-s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDP-SYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHH
Confidence            455677789999999999999999999863 3677899999999999999999999999998744 46788888999999


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      ..|++++|...|++.........-..+|..+.-+..+.|+.+.|.+.|++..+.. +-...+.-.+.......|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            9999999999999999886544456789999999999999999999999998863 334567778888899999999999


Q ss_pred             HHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       241 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      .+++.....+. ++..+....|+.-...|+.+.+-++-.++..
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            99999877654 8888888889999999999888887666544

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

Probab=99.41  E-value=2.1e-09  Score=83.62  Aligned_cols=189  Identities=13%  Similarity=0.064  Sum_probs=127.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCH-------HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCC
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDV-------TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGR  129 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  129 (302)
                      .|++.....++..+.+.+.-.+.       .+|+.+++-....+..+.-...++...++ .+-++..-.+++.-+.++|+
T Consensus       200 ~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~  278 (400)
T COG3071         200 LGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGD  278 (400)
T ss_pred             hccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCC
Confidence            44455555555555544433222       23444444444444434433344443322 12244555666777788888


Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022131          130 IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWN  209 (302)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (302)
                      .++|.++..+..+.+..|+    -...-.+.+-++...-.+..++..+..  +.++..+.+|...|.+.+.|.+|...|+
T Consensus       279 ~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h--~~~p~L~~tLG~L~~k~~~w~kA~~~le  352 (400)
T COG3071         279 HDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH--PEDPLLLSTLGRLALKNKLWGKASEALE  352 (400)
T ss_pred             hHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhHHHHHHHHHH
Confidence            8999888888888766554    222334567777777777777776665  4566788999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc
Q 022131          210 DVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ  254 (302)
Q Consensus       210 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  254 (302)
                      ...+.  .|+..+|+.+..++.+.|+..+|.++.++....-..|+
T Consensus       353 aAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         353 AALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            87774  79999999999999999999999999998764433343

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.40  E-value=3.1e-10  Score=93.66  Aligned_cols=240  Identities=16%  Similarity=0.107  Sum_probs=176.5

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-----C-CCCCH-HHHHHHHHHHHhcCCchhHHHHHHHH
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-----G-IEPDV-TSFSIVLHVYSRAHQPQLSLDKLNFM  105 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~  105 (302)
                      -..+...+...|..          .|+++.|+.+++...+.     | ..|.. ...+.+...|...+++++|..+|+++
T Consensus       198 ~~~~~~~La~~y~~----------~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~A  267 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAV----------QGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEA  267 (508)
T ss_pred             HHHHHHHHHHHHHH----------hccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            34566667888888          88889999888887664     2 12333 34455778899999999999999998


Q ss_pred             Hhc-----C--CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-----CC-CCC-hhhHHHHHHHHHccCCchHHHHH
Q 022131          106 KEK-----G--ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN-----GV-CPS-AETYNCFFKEYRGRKDANGAMKL  171 (302)
Q Consensus       106 ~~~-----~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~  171 (302)
                      ...     |  .+.-..+++.|..+|.+.|++++|...+++..+.     |. .|. ...++.+...|...+++++|..+
T Consensus       268 L~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l  347 (508)
T KOG1840|consen  268 LTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKL  347 (508)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHH
Confidence            654     2  1223456788888999999999999888876542     11 122 23456677788999999999999


Q ss_pred             HHHHHhCCC--CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C---CCCCHHHHHHHHHHHHHcCCHHH
Q 022131          172 YRQMKEDGL--CVP----NMHSYNILIGMFMALNRMDMVREIWNDVKGS----G---LGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       172 ~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~---~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      ++...+.-.  ..+    -..+++.+...|...|++++|.++++++...    +   ..-....++.+...|.+.+++.+
T Consensus       348 ~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~  427 (508)
T KOG1840|consen  348 LQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEE  427 (508)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccch
Confidence            887654311  112    2457899999999999999999999987753    1   12234677889999999999999


Q ss_pred             HHHHHHHHHHC--CCCCc----hhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          239 ACQYFVEMIEK--GLLPQ----KVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       239 a~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      |.++|.+...-  -+.|+    ..+|..|...|...|+++.|.++.+...
T Consensus       428 a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  428 AEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            99999876432  12232    3678999999999999999999987755

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

Probab=99.39  E-value=1.7e-10  Score=94.99  Aligned_cols=230  Identities=12%  Similarity=0.030  Sum_probs=188.3

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCC---C------------------------------cccHHHHHHHHHHHHhcccC
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERG---V------------------------------EPNVVTYNVLLNGVCRRASL   50 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~---~------------------------------~~~~~~~~~ll~~~~~~~~~   50 (302)
                      -+-.+|...+++++|+.+|+.+.+..   +                              +-.+.+|-++-.+|.-    
T Consensus       358 q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSL----  433 (638)
T KOG1126|consen  358 QLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSL----  433 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhh----
Confidence            35577888899999999999887641   0                              1134455555555555    


Q ss_pred             CcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCH
Q 022131           51 HPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRI  130 (302)
Q Consensus        51 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  130 (302)
                            +++.+.|++.|++..+.+ +....+|+.+.+-+....++|.|...|+..+..... +-..|--+.-.|.+.+++
T Consensus       434 ------Qkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~  505 (638)
T KOG1126|consen  434 ------QKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKL  505 (638)
T ss_pred             ------hhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchh
Confidence                  899999999999999874 227889999999999999999999999998876432 555677788889999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 022131          131 EDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWND  210 (302)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (302)
                      +.|+-.|++..+.++ -+.+....+...+.+.|+.++|++++++.....  +.|+..--.-+..+...++.++|...+++
T Consensus       506 e~Ae~~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~kn~l~~~~~~~il~~~~~~~eal~~LEe  582 (638)
T KOG1126|consen  506 EFAEFHFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PKNPLCKYHRASILFSLGRYVEALQELEE  582 (638)
T ss_pred             hHHHHHHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CCCchhHHHHHHHHHhhcchHHHHHHHHH
Confidence            999999999998764 467777888889999999999999999999886  56666666667778889999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          211 VKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       211 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      +++. ++-+...|..+...|.+.|+.+.|+.-|.-+.+.
T Consensus       583 Lk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  583 LKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            9986 4445677888889999999999999999988764

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.38  E-value=4.8e-10  Score=92.53  Aligned_cols=235  Identities=16%  Similarity=0.138  Sum_probs=171.1

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhC-----C-CcccHH-HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc--
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIER-----G-VEPNVV-TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR--   73 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--   73 (302)
                      ..+...|...|++++|+.++++..+.     | ..|... ..+.+...|..          .+++.+|..+|+++.+.  
T Consensus       203 ~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~----------~~k~~eAv~ly~~AL~i~e  272 (508)
T KOG1840|consen  203 RNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRS----------LGKYDEAVNLYEEALTIRE  272 (508)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHH----------hccHHHHHHHHHHHHHHHH
Confidence            34778899999999999999998765     2 123333 23335556666          77778888888777652  


Q ss_pred             ---C--CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc-----CC-CcCHH-HHHHHHHHHhccCCHHHHHHHHHHHH
Q 022131           74 ---G--IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK-----GI-CPTVA-TYSSVVKCLCSCGRIEDAEELLGEMV  141 (302)
Q Consensus        74 ---~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~  141 (302)
                         |  .+.-..+++.|..+|.+.|++++|...++...+.     |. .|... .++.+...+...+++++|..++++..
T Consensus       273 ~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al  352 (508)
T KOG1840|consen  273 EVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKAL  352 (508)
T ss_pred             HhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence               2  1222457888888999999999998888776432     21 22222 36677788889999999999998765


Q ss_pred             HC---CCCC----ChhhHHHHHHHHHccCCchHHHHHHHHHHhCC----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022131          142 RN---GVCP----SAETYNCFFKEYRGRKDANGAMKLYRQMKEDG----L--CVPNMHSYNILIGMFMALNRMDMVREIW  208 (302)
Q Consensus       142 ~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (302)
                      +.   -+.+    -..+++.|...|...|++++|.++++++....    .  ..-....++.+...|.+.++..+|.++|
T Consensus       353 ~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~  432 (508)
T KOG1840|consen  353 KIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLF  432 (508)
T ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHH
Confidence            43   1222    24688999999999999999999999886432    1  1222456788889999999999999998


Q ss_pred             HHHHh----CC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          209 NDVKG----SG--LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       209 ~~~~~----~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      .+...    .|  .+-...+|..|...|...|++++|.++.+...
T Consensus       433 ~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  433 EEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            87443    22  22235789999999999999999999998875

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

Probab=99.38  E-value=5.1e-09  Score=89.27  Aligned_cols=187  Identities=12%  Similarity=0.027  Sum_probs=109.3

Q ss_pred             HhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 022131           10 CKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVY   89 (302)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   89 (302)
                      ...|++++|..++.+..+.. +.+...|..|-..|-.          .|+.+++...+--....+ +.|...|..+....
T Consensus       150 farg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEq----------rGd~eK~l~~~llAAHL~-p~d~e~W~~ladls  217 (895)
T KOG2076|consen  150 FARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQ----------RGDIEKALNFWLLAAHLN-PKDYELWKRLADLS  217 (895)
T ss_pred             HHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHH----------cccHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            34499999999999998873 5577789999999988          666666666555444443 33556777777777


Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChh----hHHHHHHHHHccCCc
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAE----TYNCFFKEYRGRKDA  165 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~  165 (302)
                      .+.|+++.|.-.|.+..+.. +++...+-.-...|-+.|+...|...|.++.+...+.|..    ..-.+++.+...++-
T Consensus       218 ~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~  296 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNER  296 (895)
T ss_pred             HhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHH
Confidence            77777777777777776664 3344444455666667777777777777766653311211    112223344444544


Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWN  209 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (302)
                      +.|.+.+......+....+...++.++..+.+...++.|.....
T Consensus       297 e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~  340 (895)
T KOG2076|consen  297 ERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIV  340 (895)
T ss_pred             HHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHH
Confidence            55555555554422112333334444444444444444444333

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

Probab=99.36  E-value=4e-11  Score=101.57  Aligned_cols=239  Identities=16%  Similarity=0.189  Sum_probs=162.1

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      ||.++|.-||..|+.+.|- +|..|.-...+.+...++.++.+....+          +.+.+.           .|.+.
T Consensus        27 tyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~An----------d~Enpk-----------ep~aD   84 (1088)
T KOG4318|consen   27 TYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEAN----------DAENPK-----------EPLAD   84 (1088)
T ss_pred             hHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccc----------cccCCC-----------CCchh
Confidence            6899999999999999999 9999988888888899999998888843          333332           67899


Q ss_pred             HHHHHHHHHHhcCCchh---HHHHHHHH----HhcCCCcCHHHHHHHHHHH--------------hccCCHHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQL---SLDKLNFM----KEKGICPTVATYSSVVKCL--------------CSCGRIEDAEELLGE  139 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~---a~~~~~~~----~~~~~~~~~~~~~~ll~~~--------------~~~~~~~~a~~~~~~  139 (302)
                      +|..|+.+|...||...   +.+.+..+    ...|+-.....+-..+.++              .-.|-++.+.+++..
T Consensus        85 tyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~  164 (1088)
T KOG4318|consen   85 TYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAK  164 (1088)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999754   22222222    2233321122221222221              112222333333222


Q ss_pred             HHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 022131          140 MVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD  219 (302)
Q Consensus       140 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  219 (302)
                      +.....  + .++..+++-+....  .-..++......... .|+..++..++.+....|+.+.|..++.+|.+.|++.+
T Consensus       165 ~Pvsa~--~-~p~~vfLrqnv~~n--tpvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  165 VPVSAW--N-APFQVFLRQNVVDN--TPVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             CCcccc--c-chHHHHHHHhccCC--chHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            211100  0 01111233333322  223333333333222 58999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcch
Q 022131          220 LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDM  270 (302)
Q Consensus       220 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  270 (302)
                      .+-|..|+-+   .++..-+..+++.|.+.|+.|+..|+...+..+...|.
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            9988888877   88888899999999999999999999998888877554

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

Probab=99.36  E-value=5.8e-10  Score=95.56  Aligned_cols=270  Identities=12%  Similarity=0.083  Sum_probs=202.0

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhC---CCcccHH------HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIER---GVEPNVV------TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR   73 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~------~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   73 (302)
                      |.+.......|++.+|...|......   ...++..      +--.+....-.          .++.+.|.+.|..+...
T Consensus       456 NNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~----------l~~~~~A~e~Yk~Ilke  525 (1018)
T KOG2002|consen  456 NNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEE----------LHDTEVAEEMYKSILKE  525 (1018)
T ss_pred             HhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHh----------hhhhhHHHHHHHHHHHH
Confidence            56677788899999999999998765   2223331      11122222333          67889999999999886


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CCCChhh
Q 022131           74 GIEPD-VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNG-VCPSAET  151 (302)
Q Consensus        74 ~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~  151 (302)
                        -|. +..|-.++......+...+|...+....+.+ ..++..++.+...+.+...+..|..-|+...+.- ..+|+.+
T Consensus       526 --hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Ys  602 (1018)
T KOG2002|consen  526 --HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYS  602 (1018)
T ss_pred             --CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhH
Confidence              333 4455555544455678889999999988765 3477778888889999999988988777766542 2256666


Q ss_pred             HHHHHHHHHc------------cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 022131          152 YNCFFKEYRG------------RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD  219 (302)
Q Consensus       152 ~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  219 (302)
                      ...|...|..            .+..++|+++|.+..+..  +.|...-|-+.-.++..|++..|..+|.++.+.. .-.
T Consensus       603 liaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d--pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~  679 (1018)
T KOG2002|consen  603 LIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND--PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDF  679 (1018)
T ss_pred             HHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC--cchhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhC
Confidence            6666665532            235578999999999887  7788888888888999999999999999999863 345


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCc
Q 022131          220 LDSYTMLIHGLCEKQKWKEACQYFVEMIEK-GLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITF  288 (302)
Q Consensus       220 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  288 (302)
                      ..+|-.+..+|+..|++..|+++|+...+. .-.-+..+...|.+++.+.|.+.+|.+.+.........-
T Consensus       680 ~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~  749 (1018)
T KOG2002|consen  680 EDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSN  749 (1018)
T ss_pred             CceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCcc
Confidence            678889999999999999999999988765 334467788999999999999999999877765544443

>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=99.34  E-value=1e-08  Score=85.66  Aligned_cols=255  Identities=12%  Similarity=0.057  Sum_probs=147.4

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      ..+...|++++|++.++.-... +.............+.+          .|+.++|..+|..+.+++ +.|..-|..+.
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~k----------Lg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~   79 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLK----------LGRKEEAEKIYRELIDRN-PDNYDYYRGLE   79 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHC-CCcHHHHHHHH
Confidence            3456778888888888665443 33233444555556666          677788888888888774 22444444444


Q ss_pred             HHHHhcC-----CchhHHHHHHHHH----------------------------------hcCCCcCHHHHHHHHHHHhcc
Q 022131           87 HVYSRAH-----QPQLSLDKLNFMK----------------------------------EKGICPTVATYSSVVKCLCSC  127 (302)
Q Consensus        87 ~~~~~~~-----~~~~a~~~~~~~~----------------------------------~~~~~~~~~~~~~ll~~~~~~  127 (302)
                      .+.....     +.+....+++++.                                  ..|+|+   +|+.+-..|...
T Consensus        80 ~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~  156 (517)
T PF12569_consen   80 EALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDP  156 (517)
T ss_pred             HHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcCh
Confidence            4442221     2344455555543                                  333321   344444444444


Q ss_pred             CCHHHHHHHHHHHHHC----C----------CCCCh--hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH
Q 022131          128 GRIEDAEELLGEMVRN----G----------VCPSA--ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL  191 (302)
Q Consensus       128 ~~~~~a~~~~~~~~~~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  191 (302)
                      ....-...++......    +          -+|+.  +++..+.+.|...|++++|+.++++..+..  +-.+..|..-
T Consensus       157 ~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~K  234 (517)
T PF12569_consen  157 EKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTK  234 (517)
T ss_pred             hHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHH
Confidence            4444444444444322    1          12333  344555666777788888888888777763  3336667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhh------H--HHHHH
Q 022131          192 IGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVT------F--ETLYR  263 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~------~--~~l~~  263 (302)
                      ...+-+.|++.+|.+.++....... -|...-+..+..+.++|+.++|.+++....+.+..|-...      |  .....
T Consensus       235 arilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~  313 (517)
T PF12569_consen  235 ARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAE  313 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHH
Confidence            7777778888888888877777532 3555556666777778888888887777765554332211      1  22346


Q ss_pred             HHhhcchHHHHHHHHH
Q 022131          264 GLIQSDMLRTWRRLKK  279 (302)
Q Consensus       264 ~~~~~g~~~~a~~~~~  279 (302)
                      +|.+.|++..|.+.+.
T Consensus       314 a~~r~~~~~~ALk~~~  329 (517)
T PF12569_consen  314 AYLRQGDYGLALKRFH  329 (517)
T ss_pred             HHHHHhhHHHHHHHHH
Confidence            6777777666655443

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 [], [].

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

Probab=99.34  E-value=1.4e-08  Score=86.67  Aligned_cols=267  Identities=11%  Similarity=0.045  Sum_probs=190.5

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |.+|-..|-..|+.+++...+-..-.. .+-|...|..+-.-..+          .+.+++|.-.|.+..+.. +++...
T Consensus       176 y~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~----------~~~i~qA~~cy~rAI~~~-p~n~~~  243 (895)
T KOG2076|consen  176 YYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQ----------LGNINQARYCYSRAIQAN-PSNWEL  243 (895)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHh----------cccHHHHHHHHHHHHhcC-CcchHH
Confidence            678888999999999999888665554 34567888888887777          788899999999988875 446666


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHH----HHHHHhccCCHHHHHHHHHHHHHC-CCCCChhhHHHHH
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSS----VVKCLCSCGRIEDAEELLGEMVRN-GVCPSAETYNCFF  156 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~  156 (302)
                      +-.-...|-+.|+...|...|.++.+...+.|..-+..    ++..+...++-+.|.+.++..... +-..+...++.++
T Consensus       244 ~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~a  323 (895)
T KOG2076|consen  244 IYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILA  323 (895)
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHH
Confidence            66667788888999999999998888754333333333    344455666667777777766552 2234555666666


Q ss_pred             HHHHccCCchHHHHHHHHHHh-----------------------------------------------------------
Q 022131          157 KEYRGRKDANGAMKLYRQMKE-----------------------------------------------------------  177 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~-----------------------------------------------------------  177 (302)
                      ..+.+...++.+.........                                                           
T Consensus       324 el~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l  403 (895)
T KOG2076|consen  324 ELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFL  403 (895)
T ss_pred             HHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHH
Confidence            777776666666666555544                                                           


Q ss_pred             --CCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-
Q 022131          178 --DGL-CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-  253 (302)
Q Consensus       178 --~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-  253 (302)
                        ... +.-+...|.-+..++...|++.+|..++..+......-+...|-.+..+|...|..++|.+.|...+..  .| 
T Consensus       404 ~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~  481 (895)
T KOG2076|consen  404 VEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APD  481 (895)
T ss_pred             HHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCC
Confidence              110 011233456677888888888889888888887655556778888888888889999999998888764  34 


Q ss_pred             chhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          254 QKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       254 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      +...-..|...+.+.|+.++|.+.+..+.
T Consensus       482 ~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  482 NLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             chhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            33455556667788888898888888765

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.32  E-value=5.8e-09  Score=82.26  Aligned_cols=225  Identities=11%  Similarity=0.020  Sum_probs=129.1

Q ss_pred             cchHHHHHHHHHhCC-Cccc--HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 022131           15 IDMAERFLGEMIERG-VEPN--VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR   91 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~-~~~~--~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   91 (302)
                      .+.++.-+.+++... ..|+  ...|..+-..+..          .|+.++|...|++..+.. +.+...|+.+...+..
T Consensus        42 ~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~----------~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~  110 (296)
T PRK11189         42 QEVILARLNQILASRDLTDEERAQLHYERGVLYDS----------LGLRALARNDFSQALALR-PDMADAYNYLGIYLTQ  110 (296)
T ss_pred             HHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            345556666665431 1222  2345555555555          666777777777777764 3356777777778888


Q ss_pred             cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHH
Q 022131           92 AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKL  171 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  171 (302)
                      .|+++.|...|+...+.... +..++..+..++...|++++|.+.|++..+..  |+..........+...++.++|...
T Consensus       111 ~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~  187 (296)
T PRK11189        111 AGNFDAAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKEN  187 (296)
T ss_pred             CCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHH
Confidence            88888888888877766422 45667777777777788888888888777653  3322222222233456677777777


Q ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 022131          172 YRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS---GL---GPDLDSYTMLIHGLCEKQKWKEACQYFVE  245 (302)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~  245 (302)
                      +.+.....  .|+...+ .+.  ....|+...+ +.+..+.+.   ..   +.....|..+...+.+.|++++|...|++
T Consensus       188 l~~~~~~~--~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~  261 (296)
T PRK11189        188 LKQRYEKL--DKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKL  261 (296)
T ss_pred             HHHHHhhC--CccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            76554332  2222111 222  2234444433 233333321   00   01234677777777788888888888887


Q ss_pred             HHHCCCCCchhhHHH
Q 022131          246 MIEKGLLPQKVTFET  260 (302)
Q Consensus       246 ~~~~~~~p~~~~~~~  260 (302)
                      ..+.+ +||..-+..
T Consensus       262 Al~~~-~~~~~e~~~  275 (296)
T PRK11189        262 ALANN-VYNFVEHRY  275 (296)
T ss_pred             HHHhC-CchHHHHHH
Confidence            77643 234444433

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

Probab=99.31  E-value=9.3e-09  Score=74.39  Aligned_cols=209  Identities=12%  Similarity=0.052  Sum_probs=175.6

Q ss_pred             HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHH
Q 022131           36 TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVA  115 (302)
Q Consensus        36 ~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  115 (302)
                      +...+.-.|.+          .|+...|..-+++..+.+ +.+..+|..+...|.+.|+.+.|.+-|++..+.... +..
T Consensus        37 arlqLal~YL~----------~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~Gd  104 (250)
T COG3063          37 ARLQLALGYLQ----------QGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGD  104 (250)
T ss_pred             HHHHHHHHHHH----------CCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccc
Confidence            34455556777          788899999999999985 346789999999999999999999999999988643 778


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM  194 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (302)
                      +.|.....+|..|++++|...|++....-. .-...+|..+.-+..+.|+++.+...|++..+..  +....+...+...
T Consensus       105 VLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~  182 (250)
T COG3063         105 VLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARL  182 (250)
T ss_pred             hhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHH
Confidence            899999999999999999999999987621 1235688888888899999999999999999986  5566778889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHH
Q 022131          195 FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETL  261 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  261 (302)
                      ....|++-.|...++.....+. ++..+.-..|+.--..|+.+.+-++=..+.+.  -|...-+..+
T Consensus       183 ~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~f  246 (250)
T COG3063         183 HYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQTF  246 (250)
T ss_pred             HHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHhH
Confidence            9999999999999999988865 89999988999999999999988887777653  5666555443

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

Probab=99.31  E-value=1.4e-09  Score=86.71  Aligned_cols=153  Identities=9%  Similarity=0.039  Sum_probs=96.3

Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMK  170 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  170 (302)
                      -.|+.-.|..-|+........+ ...|-.+..+|....+.++....|+...+.+. -++.+|..-.+.+.-.+++++|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHHHH
Confidence            3567777777777777765332 22366666667777777777777777776543 355566666666666666666666


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          171 LYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      =|++.....  +.+...|..+..+..+.++++++...|++.+++ ++-.+..|+.....+...++++.|.+.|+..++
T Consensus       416 DF~Kai~L~--pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  416 DFQKAISLD--PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHhhcC--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            666666654  445555555555555666666666666666655 445556666666666666666666666665544

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

Probab=99.31  E-value=2.4e-08  Score=82.67  Aligned_cols=266  Identities=11%  Similarity=-0.020  Sum_probs=213.6

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      ||+.--+.|.+.+.++-|..+|...++. .+-+...|......=-.          .|..+....+|++....- +-...
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~----------hgt~Esl~Allqkav~~~-pkae~  585 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKS----------HGTRESLEALLQKAVEQC-PKAEI  585 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHh----------cCcHHHHHHHHHHHHHhC-Ccchh
Confidence            3556667788888888888888888776 34455666666544444          677788889999998873 33455


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      .|-...+.+...|+...|..++....+.... +...|.+-+..-..+..++.|..+|.+....  .|+...|.--+..--
T Consensus       586 lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er  662 (913)
T KOG0495|consen  586 LWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLER  662 (913)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHH
Confidence            6677778888899999999999999988644 7889999999999999999999999998874  578888888777777


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      -.++.++|.+++++..+.-  +.-...|..+.+.+-+.++.+.|.+.|..-.+. ++-.+..|-.+...=-+.|++-.|.
T Consensus       663 ~ld~~eeA~rllEe~lk~f--p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR  739 (913)
T KOG0495|consen  663 YLDNVEEALRLLEEALKSF--PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRAR  739 (913)
T ss_pred             HhhhHHHHHHHHHHHHHhC--CchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHH
Confidence            8899999999999999884  444667888888999999999999999877665 5556677888877778889999999


Q ss_pred             HHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       241 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      .++++.+-++ +-+...|...|+.-.+.|..+.|..+..+..+..
T Consensus       740 ~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQec  783 (913)
T KOG0495|consen  740 SILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQEC  783 (913)
T ss_pred             HHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999987653 4467788899999999999999998877655543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.30  E-value=3.8e-09  Score=83.27  Aligned_cols=221  Identities=9%  Similarity=-0.062  Sum_probs=159.1

Q ss_pred             HHHHHHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRG-IEPD--VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      ....+.++.-+.++.... ..|+  ...|..+...+...|+.+.|...|++..+... .+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHH
Confidence            455677788888887643 1222  45688888899999999999999999998763 3788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          134 EELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      ...|++..+... -+..+|..+..++...|++++|.+.++...+..  +.+. ........+...++.++|.+.+.+...
T Consensus       118 ~~~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~-~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        118 YEAFDSVLELDP-TYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDP-YRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCH-HHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            999999998643 356778888888999999999999999999874  3333 222222234467889999999977654


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---C--CCC-chhhHHHHHHHHhhcchHHHHHHHHHhccccCCC
Q 022131          214 SGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK---G--LLP-QKVTFETLYRGLIQSDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       214 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~--~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  287 (302)
                      . ..|+...+ .+  .....|+...+ +.+..+.+.   .  +.| ....|..+...+...|++++|...+++..+..++
T Consensus       194 ~-~~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~  268 (296)
T PRK11189        194 K-LDKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVY  268 (296)
T ss_pred             h-CCccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence            3 23332222 22  22345555444 344444422   1  111 2357888999999999999999999998877653

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

Probab=99.25  E-value=4.8e-09  Score=83.24  Aligned_cols=207  Identities=14%  Similarity=0.158  Sum_probs=166.1

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      .+|++++|.+.|.+.+...-.-....||.=+. +-.          .+++++|+..|-.+... +..+..+.-.+...|-
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfniglt-~e~----------~~~ldeald~f~klh~i-l~nn~evl~qianiye  569 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGLT-AEA----------LGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYE  569 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhccc-HHH----------hcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHH
Confidence            36889999999999987733323333443332 333          78889999999887653 2337788888899999


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMK  170 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  170 (302)
                      ...++..|++++.+.... ++-|+.....|...|-+.|+-.+|++.+-+--+. ++.+..+...+...|....-+++++.
T Consensus       570 ~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~  647 (840)
T KOG2003|consen  570 LLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAIN  647 (840)
T ss_pred             HhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHH
Confidence            999999999999888765 5668899999999999999999999887665443 55688888888888999999999999


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          171 LYRQMKEDGLCVPNMHSYNILIGMFM-ALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                      .|++..-.   .|+..-|..++..|. +.|++.+|.++++....+ ++-|......|++.+...|-
T Consensus       648 y~ekaali---qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  648 YFEKAALI---QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHhc---CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            99987665   799999988876555 679999999999998876 78899999999998877763

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

Probab=99.24  E-value=4.8e-08  Score=84.23  Aligned_cols=265  Identities=8%  Similarity=0.019  Sum_probs=188.4

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      .++.+.|+.+.|+..|...++.  .|  ....+++....-.-.+..    ...+..+..++......+ +-|+...+.|.
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqL--dp--~~v~alv~L~~~~l~~~d----~~s~~~~~~ll~~ay~~n-~~nP~~l~~LA  277 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQL--DP--TCVSALVALGEVDLNFND----SDSYKKGVQLLQRAYKEN-NENPVALNHLA  277 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhc--Ch--hhHHHHHHHHHHHHHccc----hHHHHHHHHHHHHHHhhc-CCCcHHHHHHH
Confidence            3445666777777777776665  22  222222221111001111    445667777777776654 44788889999


Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCC--cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGIC--PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      ..|.-.|+++.+..+...+......  .-...|-.+.++|-..|++++|...|.+..+.......-.+.-+.+.+...|+
T Consensus       278 n~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~d  357 (1018)
T KOG2002|consen  278 NHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGD  357 (1018)
T ss_pred             HHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhch
Confidence            9999999999999999888765311  12345778899999999999999999998876432224556678889999999


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN----RMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      .+.+...|+.+.+..  +.+..+...|...|...+    ..+.|..++.+.... .+.|...|-.+...+-.. +...++
T Consensus       358 le~s~~~fEkv~k~~--p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~-~~~d~~a~l~laql~e~~-d~~~sL  433 (1018)
T KOG2002|consen  358 LEESKFCFEKVLKQL--PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ-TPVDSEAWLELAQLLEQT-DPWASL  433 (1018)
T ss_pred             HHHHHHHHHHHHHhC--cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc-ccccHHHHHHHHHHHHhc-ChHHHH
Confidence            999999999999885  667788888888887775    457777777777765 355777887777766554 444447


Q ss_pred             HHHHHHH----HCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          241 QYFVEMI----EKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       241 ~~~~~~~----~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .+|..+.    ..+-.+.+...+.+.......|++++|...++.....
T Consensus       434 ~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  434 DAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence            7776554    4455678889999999999999999999999876654

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

Probab=99.23  E-value=1.5e-08  Score=82.32  Aligned_cols=258  Identities=9%  Similarity=-0.060  Sum_probs=169.1

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      .-+...+++.+..++.+...+. .++....+..-|.++..          .++..+-..+=.++.+. .+..+.+|-++.
T Consensus       252 d~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~e----------l~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg  319 (611)
T KOG1173|consen  252 DRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYE----------LGKSNKLFLLSHKLVDL-YPSKALSWFAVG  319 (611)
T ss_pred             HHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHH----------hcccchHHHHHHHHHHh-CCCCCcchhhHH
Confidence            3455678899999999988876 46677777777777777          34434444444455544 344567888888


Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  166 (302)
                      -.|.-.|+..+|.+.|.+....+.. =...|-.....|+-.|..++|...+...-+. ++...-.+--+.--|.+.++.+
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~k  397 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLK  397 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHH
Confidence            8888888888888888887665422 2446777778888888888888777766553 1111112222333466677777


Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC---C-CCHHHHHHHHHHHHHcCCHHHHH
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--GL---G-PDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~---~-~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      .|.++|.+.....  +.|+...+-+.-.....+.+.+|...|+.....  ..   . .-..+++.|..+|.+.+.+++|+
T Consensus       398 LAe~Ff~~A~ai~--P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  398 LAEKFFKQALAIA--PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHhcC--CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            7777777776654  566666666666666667777777777765521  00   0 13345667777777777777777


Q ss_pred             HHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhc
Q 022131          241 QYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       241 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  281 (302)
                      ..+++.... .+-|..++.++.-.+...|+++.|.+.|.+.
T Consensus       476 ~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKa  515 (611)
T KOG1173|consen  476 DYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKA  515 (611)
T ss_pred             HHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            777777654 2346667777777777777777777776653

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

Probab=99.23  E-value=1e-07  Score=79.06  Aligned_cols=265  Identities=11%  Similarity=0.034  Sum_probs=190.2

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLH   87 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   87 (302)
                      .+-..|++..|..++....+.. +-+...|-.-+..-..          ...++.|..+|.+....  .|+..+|.--++
T Consensus       593 e~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~e----------n~e~eraR~llakar~~--sgTeRv~mKs~~  659 (913)
T KOG0495|consen  593 EKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFE----------NDELERARDLLAKARSI--SGTERVWMKSAN  659 (913)
T ss_pred             HHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhc----------cccHHHHHHHHHHHhcc--CCcchhhHHHhH
Confidence            3445577777777777666552 2245566666665555          66777787777777654  566666666666


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchH
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG  167 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  167 (302)
                      .-.-.++.++|.+++++.++. ++--...|..+.+.+-+.++++.|...|..-.+. .+..+..|..+.+.--+.|+.-.
T Consensus       660 ~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~r  737 (913)
T KOG0495|consen  660 LERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVR  737 (913)
T ss_pred             HHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhh
Confidence            666677778888888777765 2323445667777777777777777777665554 33456677777777778888888


Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-------------------------CCC
Q 022131          168 AMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS----G-------------------------LGP  218 (302)
Q Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-------------------------~~~  218 (302)
                      |..+++.....+  +.+...|...|++=.+.|+.+.|..+..+..+.    |                         ...
T Consensus       738 AR~ildrarlkN--Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~  815 (913)
T KOG0495|consen  738 ARSILDRARLKN--PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEH  815 (913)
T ss_pred             HHHHHHHHHhcC--CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccC
Confidence            999998888776  778888999999999999999988887766543    1                         123


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCccc
Q 022131          219 DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGS  290 (302)
Q Consensus       219 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  290 (302)
                      |.+..-.+...+....++++|.+.|.+.++.+ +-+..+|..+...+.+.|.-++-.+++++......+.+.
T Consensus       816 dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~  886 (913)
T KOG0495|consen  816 DPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGE  886 (913)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCc
Confidence            56667777778888889999999999988753 224578888899999999888888888887776655544

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

Probab=99.20  E-value=1.4e-09  Score=84.63  Aligned_cols=251  Identities=12%  Similarity=0.069  Sum_probs=162.9

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      +-+.-.|++..++.-.+ ......+.+......+.+++..          .|+.+.   +..++.... .|.......+.
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iA----------lg~~~~---vl~ei~~~~-~~~l~av~~la   73 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIA----------LGQYDS---VLSEIKKSS-SPELQAVRLLA   73 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHH----------TT-HHH---HHHHS-TTS-SCCCHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHH----------cCChhH---HHHHhccCC-ChhHHHHHHHH
Confidence            34445688888886665 3232223344455566666666          555443   334444433 66777766665


Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      ..+...++-+.+..-+++.......+ +..........+...|++++|++++...      .+.......+..+.+.+++
T Consensus        74 ~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~  147 (290)
T PF04733_consen   74 EYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRP  147 (290)
T ss_dssp             HHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-H
T ss_pred             HHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCH
Confidence            55544344455555554443333232 3333333445677789999998887643      3667777888999999999


Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      +.|.+.++.|.+.+   .| .+...+..++..    ...+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+
T Consensus       148 dlA~k~l~~~~~~~---eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~  222 (290)
T PF04733_consen  148 DLAEKELKNMQQID---ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEE  222 (290)
T ss_dssp             HHHHHHHHHHHCCS---CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHH
T ss_pred             HHHHHHHHHHHhcC---Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            99999999998763   33 445555555553    33689999999998776 66888999999999999999999999


Q ss_pred             HHHHHHHCCCCCchhhHHHHHHHHhhcchH-HHHHHHHHhcccc
Q 022131          242 YFVEMIEKGLLPQKVTFETLYRGLIQSDML-RTWRRLKKKLDEE  284 (302)
Q Consensus       242 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~  284 (302)
                      ++.+..+.+ +-++.++..++-+....|+. +.+.+++.++...
T Consensus       223 ~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  223 LLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999886543 33667778888888888887 7788888888764

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.

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

Probab=99.17  E-value=1.6e-08  Score=80.91  Aligned_cols=219  Identities=12%  Similarity=0.057  Sum_probs=143.3

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      -.|+.-.|.+-|+........+ +..|--+...|..          ..+-++..+.|+...+.+. -|+.+|..-.....
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d----------~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~f  405 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYAD----------ENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRF  405 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhh----------hhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHH
Confidence            3567777777777777663222 2225555556666          6666777777777776653 35666776677777


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMK  170 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  170 (302)
                      -.++++.|..=|++..+.... +...|-.+.-+..|.+.++++...|++.++. ++..+..|+.....+...++++.|.+
T Consensus       406 lL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k  483 (606)
T KOG0547|consen  406 LLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVK  483 (606)
T ss_pred             HHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHH
Confidence            777788888888877776422 5555666666666777888888888887766 44456777777788888888888888


Q ss_pred             HHHHHHhCCCCCCC-------HHHH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          171 LYRQMKEDGLCVPN-------MHSY--NILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       171 ~~~~~~~~~~~~~~-------~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      .|+...+..   |+       ...+  -.++ .+--.+++..|..++++..+.. +-....|..|...-.+.|+.++|++
T Consensus       484 ~YD~ai~LE---~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAie  558 (606)
T KOG0547|consen  484 QYDKAIELE---PREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIE  558 (606)
T ss_pred             HHHHHHhhc---cccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHH
Confidence            887776652   22       1111  1111 1113377778888888777652 2244567777777778888888888


Q ss_pred             HHHHHHH
Q 022131          242 YFVEMIE  248 (302)
Q Consensus       242 ~~~~~~~  248 (302)
                      +|++...
T Consensus       559 lFEksa~  565 (606)
T KOG0547|consen  559 LFEKSAQ  565 (606)
T ss_pred             HHHHHHH
Confidence            8876543

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

Probab=99.17  E-value=9.2e-08  Score=85.49  Aligned_cols=236  Identities=10%  Similarity=0.057  Sum_probs=187.8

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCC-----CHHHHHHHHHHHHhcCCchhHHHHHHHH
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEP-----DVTSFSIVLHVYSRAHQPQLSLDKLNFM  105 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~  105 (302)
                      |-+...|-..|....+          ..+++.|.+++++.... +.+     -...|.++++.-...|.-+...++|+++
T Consensus      1455 PNSSi~WI~YMaf~Le----------lsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA 1523 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLE----------LSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERA 1523 (1710)
T ss_pred             CCcchHHHHHHHHHhh----------hhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH
Confidence            4456788899988888          88999999999998864 222     2346777887777788888999999999


Q ss_pred             HhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCH
Q 022131          106 KEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNM  185 (302)
Q Consensus       106 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  185 (302)
                      .+..  -....|..|...|.+.+.+++|.++++.|.+. +.-....|...+..+.++++-+.|..++.+..+.--..-..
T Consensus      1524 cqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv 1600 (1710)
T KOG1070|consen 1524 CQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHV 1600 (1710)
T ss_pred             HHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhH
Confidence            8873  23456889999999999999999999999976 33577899999999999999999999999998873101134


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch--hhHHHHHH
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK--VTFETLYR  263 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~  263 (302)
                      ......++.-.+.|+.+.++.+|+..... .+-....|+..|+.-.++|+.+.+..+|++.+..++.|-.  ..|...+.
T Consensus      1601 ~~IskfAqLEFk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLe 1679 (1710)
T KOG1070|consen 1601 EFISKFAQLEFKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLE 1679 (1710)
T ss_pred             HHHHHHHHHHhhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHH
Confidence            45556666777899999999999998876 4457789999999999999999999999999999887754  45666666


Q ss_pred             HHhhcchHHHHHHHHHhc
Q 022131          264 GLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~  281 (302)
                      .=...|+-+.++.+-.+.
T Consensus      1680 yEk~~Gde~~vE~VKarA 1697 (1710)
T KOG1070|consen 1680 YEKSHGDEKNVEYVKARA 1697 (1710)
T ss_pred             HHHhcCchhhHHHHHHHH
Confidence            656667766665554443

>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=99.17  E-value=3.3e-07  Score=76.86  Aligned_cols=236  Identities=14%  Similarity=0.168  Sum_probs=161.7

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHH-HHHHHHHHhcccCCcc--hhh------------------------
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNVVTY-NVLLNGVCRRASLHPS--ERF------------------------   56 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~~~~~~~--~~~------------------------   56 (302)
                      .....+.+.|+.++|..+|..+.+.+  |+...| ..+..+..-.......  ...                        
T Consensus        43 ~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~  120 (517)
T PF12569_consen   43 KRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDF  120 (517)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhccc
Confidence            44567889999999999999999984  455544 4444444221111100  000                        


Q ss_pred             --HHHH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----C----------CCcCH--HHH
Q 022131           57 --EKTI-RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----G----------ICPTV--ATY  117 (302)
Q Consensus        57 --~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~--~~~  117 (302)
                        ...+ ..+...+..+...|++   .+|+.+-..|.......-..+++......    +          -+|+.  .++
T Consensus       121 ~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~  197 (517)
T PF12569_consen  121 LEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTL  197 (517)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHH
Confidence              0111 2233344444555543   34555555555444444455555554322    1          13444  355


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Q 022131          118 SSVVKCLCSCGRIEDAEELLGEMVRNGVCPS-AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFM  196 (302)
Q Consensus       118 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (302)
                      ..+...|...|++++|+.++++.++..  |+ +..|..-.+.+-+.|++.+|.+.++......  .-|-..-+..+..+.
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD--~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEARELD--LADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC--hhhHHHHHHHHHHHH
Confidence            677888999999999999999999874  44 7788888999999999999999999999987  578788888899999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHH--------HHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          197 ALNRMDMVREIWNDVKGSGLGPDLDSY--------TMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +.|+.++|.+++......+..|....+        .-...+|.+.|++..|++.|....+
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999999999999887654432221        3345788899999999988877654

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 [], [].

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

Probab=99.16  E-value=7.5e-08  Score=78.39  Aligned_cols=247  Identities=8%  Similarity=-0.028  Sum_probs=193.0

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      =|.++...|+..+-..+=.++.+. .|-.+.+|-++.--|..          .+...+|.+.|.+....+.. =...|-.
T Consensus       284 ~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~----------i~k~seARry~SKat~lD~~-fgpaWl~  351 (611)
T KOG1173|consen  284 HIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLM----------IGKYSEARRYFSKATTLDPT-FGPAWLA  351 (611)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHH----------hcCcHHHHHHHHHHhhcCcc-ccHHHHH
Confidence            356778888888877777777776 45567789998888887          77889999999988765311 3468888


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      ..+.|+-.|.-++|+..+...-+. ++-....+--+.--|.+.++.+.|.+.|.+..... +.|+...+-+.-.....+.
T Consensus       352 fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~  429 (611)
T KOG1173|consen  352 FGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEE  429 (611)
T ss_pred             HhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhh
Confidence            999999999999999998887664 11122233445556788899999999999988763 3577777877777778899


Q ss_pred             chHHHHHHHHHHhC----CCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          165 ANGAMKLYRQMKED----GLCV-PNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       165 ~~~a~~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      +.+|..+|+.....    +..+ ....+++.|..+|.+.+..++|+..+++.... .+-+..++..+.-.|...|+++.|
T Consensus       430 y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~A  508 (611)
T KOG1173|consen  430 YPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKA  508 (611)
T ss_pred             hHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHH
Confidence            99999999887622    1101 24567899999999999999999999998887 456889999999999999999999


Q ss_pred             HHHHHHHHHCCCCCchhhHHHHHHHHhhc
Q 022131          240 CQYFVEMIEKGLLPQKVTFETLYRGLIQS  268 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  268 (302)
                      ++.|.+...  +.|+..+...++..+...
T Consensus       509 id~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  509 IDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            999998865  688888877777765543

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

Probab=99.11  E-value=3e-07  Score=74.97  Aligned_cols=268  Identities=9%  Similarity=-0.030  Sum_probs=151.3

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLH   87 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   87 (302)
                      .+...|++++|.+++++..+.. +.+...+.. ...+...+..      .+....+.+.++... ...+........+..
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~------~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~  122 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDF------SGMRDHVARVLPLWA-PENPDYWYLLGMLAF  122 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhccc------ccCchhHHHHHhccC-cCCCCcHHHHHHHHH
Confidence            3456788888888888877652 333333332 2223332222      223334444444311 111223344556667


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CCh--hhHHHHHHHHHccCC
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PSA--ETYNCFFKEYRGRKD  164 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~  164 (302)
                      .+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++....... |+.  ..|..+...+...|+
T Consensus       123 ~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~  201 (355)
T cd05804         123 GLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGD  201 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCC
Confidence            7888889999999999888875 335667788888888889999999988888765321 222  235567778888899


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHH-H--HHHHHHHhcCCHHHHHHH---HHHHHhCCC-CCCHHHHHHHHHHHHHcCCHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSY-N--ILIGMFMALNRMDMVREI---WNDVKGSGL-GPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~~~~~~a~~~---~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~  237 (302)
                      +++|..++++........+..... +  .++.-+...|..+.+.+.   ......... ............++...|+.+
T Consensus       202 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  281 (355)
T cd05804         202 YEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKD  281 (355)
T ss_pred             HHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHH
Confidence            999999998875442101222211 1  223333334433322222   111111100 111122235666777888899


Q ss_pred             HHHHHHHHHHHCCCC------CchhhHHHHH--HHHhhcchHHHHHHHHHhccccC
Q 022131          238 EACQYFVEMIEKGLL------PQKVTFETLY--RGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~------p~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      .|..++..+......      ....+-..++  -++...|+.++|.+.+.......
T Consensus       282 ~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         282 ALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            999999888653211      0111222233  34557888899988887765443

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.

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

Probab=99.09  E-value=1.9e-06  Score=69.23  Aligned_cols=260  Identities=12%  Similarity=0.094  Sum_probs=157.1

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      ..--..|++..|.++|+...+.  .|+...|++.+..=.+          .+.++.|..+|++..-.  .|+..+|--..
T Consensus       149 ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElR----------ykeieraR~IYerfV~~--HP~v~~wikya  214 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELR----------YKEIERARSIYERFVLV--HPKVSNWIKYA  214 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHH----------hhHHHHHHHHHHHHhee--cccHHHHHHHH
Confidence            3334568899999999998887  8999999999998888          88999999999998864  58899988888


Q ss_pred             HHHHhcCCchhHHHHHHHHHhc-CC-CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC---------------------
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEK-GI-CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN---------------------  143 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------------  143 (302)
                      +.=.+.|+...+..+|+...+. |- ..+...+.+....=.++..++.|.-+|+-.++.                     
T Consensus       215 rFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfG  294 (677)
T KOG1915|consen  215 RFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFG  294 (677)
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhc
Confidence            8888888888888888877654 10 011222333322222334444444444333222                     


Q ss_pred             ----------------------CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHH--HH-----HH---H
Q 022131          144 ----------------------GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMH--SY-----NI---L  191 (302)
Q Consensus       144 ----------------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~-----~~---l  191 (302)
                                            .-+.|-.+|--.++.-...|+.+...++|++....-  +|-..  .|     ..   .
T Consensus       295 d~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv--pp~~ekr~W~RYIYLWinYa  372 (677)
T KOG1915|consen  295 DKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIANV--PPASEKRYWRRYIYLWINYA  372 (677)
T ss_pred             chhhhHHHHhhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC--CchhHHHHHHHHHHHHHHHH
Confidence                                  012355666677777777788888888888777663  33211  11     11   1


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH----HHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhh
Q 022131          192 IGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG----LCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQ  267 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~----~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  267 (302)
                      +-.=....+.+.+.++++..++. ++....||..+--.    -.++.+...|.+++...+  |.-|...+|...|..-.+
T Consensus       373 lyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElq  449 (677)
T KOG1915|consen  373 LYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQ  449 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHH
Confidence            11112345666666666666553 33333333332222    234455555555555443  345666666666666666


Q ss_pred             cchHHHHHHHHHhccccC
Q 022131          268 SDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       268 ~g~~~~a~~~~~~~~~~~  285 (302)
                      .+.++.+..++++..+.+
T Consensus       450 L~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  450 LREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HhhHHHHHHHHHHHHhcC
Confidence            666666666666655543

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

Probab=99.07  E-value=1.8e-06  Score=70.52  Aligned_cols=269  Identities=7%  Similarity=-0.048  Sum_probs=162.7

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCC-CcccHHHHHHH-HHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIERG-VEPNVVTYNVL-LNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l-l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      ..+...+...|+.+.+.+.+....+.. ..++......+ ...+..          .+++++|.+.+++..+.. +.+..
T Consensus        10 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~----------~g~~~~A~~~~~~~l~~~-P~~~~   78 (355)
T cd05804          10 AAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWI----------AGDLPKALALLEQLLDDY-PRDLL   78 (355)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHC-CCcHH
Confidence            344556666788888777777765442 12232222221 112333          678899999999988763 33444


Q ss_pred             HHHHHHHHHHh----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           81 SFSIVLHVYSR----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        81 ~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      .+.. ...+..    .+..+.+.+.+... ....+........+...+...|++++|...+++..+... .+...+..+.
T Consensus        79 a~~~-~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p-~~~~~~~~la  155 (355)
T cd05804          79 ALKL-HLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNP-DDAWAVHAVA  155 (355)
T ss_pred             HHHH-hHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCcHHHHHHH
Confidence            4442 223333    34444555554441 111222344555667788899999999999999998753 4567788888


Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHH
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNM--HSYNILIGMFMALNRMDMVREIWNDVKGSGL-GPDLDSY-T--MLIHGL  230 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~li~~~  230 (302)
                      .++...|+++++...+.+........|+.  ..|..+...+...|+.++|..++++...... .+..... +  .++..+
T Consensus       156 ~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  235 (355)
T cd05804         156 HVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRL  235 (355)
T ss_pred             HHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHH
Confidence            99999999999999999988764212332  3455788889999999999999999865322 1222211 1  223333


Q ss_pred             HHcCCHHHHHHH--HHHHHHCCCC--CchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          231 CEKQKWKEACQY--FVEMIEKGLL--PQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       231 ~~~g~~~~a~~~--~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ...|....+.+.  +.........  ...........++...|+.++|...++.+....
T Consensus       236 ~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         236 ELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             HhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            444433333222  1111111111  111222356677889999999999998876643

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

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

Probab=99.03  E-value=3e-08  Score=77.33  Aligned_cols=223  Identities=13%  Similarity=0.119  Sum_probs=146.6

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCC-CHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEP-DVTSFS   83 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~   83 (302)
                      +.+++...|+++.++   .++... -.|.......+...+..          ..+-+.++.-+++.......+ +.....
T Consensus        41 ~~Rs~iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~~----------~~~~e~~l~~l~~~~~~~~~~~~~~~~~  106 (290)
T PF04733_consen   41 QYRSYIALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLSS----------PSDKESALEELKELLADQAGESNEIVQL  106 (290)
T ss_dssp             HHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCT----------STTHHCHHHHHHHCCCTS---CHHHHHH
T ss_pred             HHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhC----------ccchHHHHHHHHHHHHhccccccHHHHH
Confidence            345566666655433   333333 26666666555544433          122344444444444333232 333333


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH---
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR---  160 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  160 (302)
                      .....+...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.+.+   +..+...+..++.   
T Consensus       107 ~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~---eD~~l~qLa~awv~l~  177 (290)
T PF04733_consen  107 LAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID---EDSILTQLAEAWVNLA  177 (290)
T ss_dssp             HHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS---CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CcHHHHHHHHHHHHHH
Confidence            3445677789999999888653      366777888999999999999999999998752   3344444555443   


Q ss_pred             -ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH-HH
Q 022131          161 -GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW-KE  238 (302)
Q Consensus       161 -~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~  238 (302)
                       ..+.+.+|..+|+++.+..  .+++.+.+.+..++...|++++|.+++.+..... +-+..+...++.+....|+. +.
T Consensus       178 ~g~e~~~~A~y~f~El~~~~--~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~  254 (290)
T PF04733_consen  178 TGGEKYQDAFYIFEELSDKF--GSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEA  254 (290)
T ss_dssp             HTTTCCCHHHHHHHHHHCCS----SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHH
T ss_pred             hCchhHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhH
Confidence             3447899999999998764  6889999999999999999999999999988763 34677777888888888887 67


Q ss_pred             HHHHHHHHHHCCCCCch
Q 022131          239 ACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       239 a~~~~~~~~~~~~~p~~  255 (302)
                      +.+++.++...  .|+.
T Consensus       255 ~~~~l~qL~~~--~p~h  269 (290)
T PF04733_consen  255 AERYLSQLKQS--NPNH  269 (290)
T ss_dssp             HHHHHHHCHHH--TTTS
T ss_pred             HHHHHHHHHHh--CCCC
Confidence            78888888763  4543

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.

>PLN02789 farnesyltranstransferase

Probab=99.02  E-value=1.8e-06  Score=68.33  Aligned_cols=213  Identities=11%  Similarity=0.060  Sum_probs=138.5

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHH-HHHHHHHHHHHHHhcCCCCCHHH
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEK-TIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      +.+-..+...++.++|+.+.+++++.. +-+..+|+..-.++..          .+ .+++++..++++.+.+.+ +..+
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~----------L~~~l~eeL~~~~~~i~~npk-nyqa  108 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEA----------LDADLEEELDFAEDVAEDNPK-NYQI  108 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHH----------cchhHHHHHHHHHHHHHHCCc-chHH
Confidence            344455566778888888888887762 2233455555555554          33 567888888888876533 5666


Q ss_pred             HHHHHHHHHhcCCc--hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           82 FSIVLHVYSRAHQP--QLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        82 ~~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      |+.....+.+.|+.  ++++.+++.+.+...+ +..+|+....++.+.|+++++++.++++++.++ -+..+|+.....+
T Consensus       109 W~~R~~~l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl  186 (320)
T PLN02789        109 WHHRRWLAEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVI  186 (320)
T ss_pred             hHHHHHHHHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHH
Confidence            77665555556653  5677788788777643 777888888888888888888888888887765 4666676666555


Q ss_pred             Hcc---CCc----hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          160 RGR---KDA----NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL----NRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       160 ~~~---~~~----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      .+.   |..    ++.+....++....  +-|...|+.+...+...    +...+|.+++.+..+.+ +.+......|+.
T Consensus       187 ~~~~~l~~~~~~~e~el~y~~~aI~~~--P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d  263 (320)
T PLN02789        187 TRSPLLGGLEAMRDSELKYTIDAILAN--PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLD  263 (320)
T ss_pred             HhccccccccccHHHHHHHHHHHHHhC--CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHH
Confidence            443   222    35566665555554  56777777777776662    33455777777766542 335566677777


Q ss_pred             HHHH
Q 022131          229 GLCE  232 (302)
Q Consensus       229 ~~~~  232 (302)
                      .|+.
T Consensus       264 ~~~~  267 (320)
T PLN02789        264 LLCE  267 (320)
T ss_pred             HHHh
Confidence            7764

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

Probab=99.00  E-value=9.2e-07  Score=69.72  Aligned_cols=156  Identities=10%  Similarity=-0.019  Sum_probs=91.2

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH-HHHHh-c
Q 022131          121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI-GMFMA-L  198 (302)
Q Consensus       121 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~  198 (302)
                      ..++...|++++|.-.|+......+ .+...|.-++..|...|.+.+|..+-++..+.-  +.+..+.+.+. ..|.- .
T Consensus       341 G~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~--~~sA~~LtL~g~~V~~~dp  417 (564)
T KOG1174|consen  341 GRLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQKRFKEANALANWTIRLF--QNSARSLTLFGTLVLFPDP  417 (564)
T ss_pred             cHHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh--hcchhhhhhhcceeeccCc
Confidence            3444455555555555555544321 345555555555555555555555544444332  23333333331 12211 1


Q ss_pred             CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHH
Q 022131          199 NRMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRL  277 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  277 (302)
                      ..-++|.+++++-...  .|+ ....+.+...|...|..+.++.++++...  ..||....+.|.+.+...+.+.++.+.
T Consensus       418 ~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~  493 (564)
T KOG1174|consen  418 RMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEY  493 (564)
T ss_pred             hhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHH
Confidence            1234455555544442  333 34556677788888999999999988876  478888888888888888888888887


Q ss_pred             HHhccc
Q 022131          278 KKKLDE  283 (302)
Q Consensus       278 ~~~~~~  283 (302)
                      |.....
T Consensus       494 y~~ALr  499 (564)
T KOG1174|consen  494 YYKALR  499 (564)
T ss_pred             HHHHHh
Confidence            765443

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

Probab=98.99  E-value=3.4e-07  Score=74.89  Aligned_cols=252  Identities=11%  Similarity=0.049  Sum_probs=186.4

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLH   87 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   87 (302)
                      -+.+.|+..+|.-.|+...+.. |-+...|..|-.....          .+.-..|+..+++..+.. +-|....-.|.-
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaE----------NE~E~~ai~AL~rcl~Ld-P~NleaLmaLAV  361 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAE----------NENEQNAISALRRCLELD-PTNLEALMALAV  361 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhh----------ccchHHHHHHHHHHHhcC-CccHHHHHHHHH
Confidence            4578899999999999888773 4467788888888877          667788999999999875 336778888889


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCc--------CHHHHHHHHHHHhccCCHHHHHHHHHHHH-HCCCCCChhhHHHHHHH
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICP--------TVATYSSVVKCLCSCGRIEDAEELLGEMV-RNGVCPSAETYNCFFKE  158 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~--------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~  158 (302)
                      .|...|.-..|.+.+.......++-        +...-..  ..+.....+....++|-++. +.+..+|+.....|--.
T Consensus       362 SytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVL  439 (579)
T KOG1125|consen  362 SYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVL  439 (579)
T ss_pred             HHhhhhhHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHH
Confidence            9999999999999998876653210        0000000  12222233445555555544 44555788899999999


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~  237 (302)
                      |...|+++++.+.|+......  +-|...||.|...++...+..+|+..|++.++.  +|+ +++.-.|.-+|...|.++
T Consensus       440 y~ls~efdraiDcf~~AL~v~--Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~yk  515 (579)
T KOG1125|consen  440 YNLSGEFDRAVDCFEAALQVK--PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYK  515 (579)
T ss_pred             HhcchHHHHHHHHHHHHHhcC--CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHH
Confidence            999999999999999999986  778889999999999999999999999999985  554 345556777789999999


Q ss_pred             HHHHHHHHHHHC---C------CCCchhhHHHHHHHHhhcchHHHHHHH
Q 022131          238 EACQYFVEMIEK---G------LLPQKVTFETLYRGLIQSDMLRTWRRL  277 (302)
Q Consensus       238 ~a~~~~~~~~~~---~------~~p~~~~~~~l~~~~~~~g~~~~a~~~  277 (302)
                      +|...|-..+..   +      -.++...|..|=.++.-.++.|-+.+.
T Consensus       516 EA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  516 EAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            999998876532   1      122345677766677777776655444

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

Probab=98.96  E-value=1.6e-07  Score=78.72  Aligned_cols=207  Identities=14%  Similarity=0.041  Sum_probs=164.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .|-...|..+|++..         .|.-++.+|...|+..+|..+..+..+.  +||+..|..+.+......-+++|.++
T Consensus       411 lGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawEl  479 (777)
T KOG1128|consen  411 LGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWEL  479 (777)
T ss_pred             cchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHH
Confidence            566677777776643         5677888999999999999998888774  68999999999888888888889888


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                      .+.....       +-..+.....+.++++++.+.|+.-.+.+  +....+|-.+..+..+.++++.|.+.|...... -
T Consensus       480 sn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL-~  549 (777)
T KOG1128|consen  480 SNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN--PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL-E  549 (777)
T ss_pred             hhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC--ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc-C
Confidence            8875443       11122222345788999999998888776  677788888888888999999999999988875 3


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          217 GPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       217 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +-+...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+-...+-|.+++|.+.+.++.+..
T Consensus       550 Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  550 PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            4467889999999999999999999999998876 5566677778888889999999999988876543

>PF12854 PPR_1: PPR repeat

Probab=98.96  E-value=1.3e-09  Score=54.94  Aligned_cols=32  Identities=41%  Similarity=0.734  Sum_probs=18.2

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          215 GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       215 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                      |+.||..+|+.||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555555555555555555555555555554

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

Probab=98.93  E-value=1.7e-06  Score=77.84  Aligned_cols=226  Identities=15%  Similarity=0.105  Sum_probs=174.6

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhC-CCccc---HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCC
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIER-GVEPN---VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEP   77 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~---~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~   77 (302)
                      |-..|......++.++|+++.++.+.. ++.-.   ...|.++++.-..          .|.-+...++|+++.+..  -
T Consensus      1461 WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~----------yG~eesl~kVFeRAcqyc--d 1528 (1710)
T KOG1070|consen 1461 WIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENA----------YGTEESLKKVFERACQYC--D 1528 (1710)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHh----------hCcHHHHHHHHHHHHHhc--c
Confidence            455677788899999999999999865 22222   2345555554444          455577889999998863  2


Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CChhhHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PSAETYNCFF  156 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~  156 (302)
                      ....|..|...|.+.+..++|.++++.|.+. +.-....|...+..+.+..+-+.|..++++..+.-.+ -........+
T Consensus      1529 ~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfA 1607 (1710)
T KOG1070|consen 1529 AYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFA 1607 (1710)
T ss_pred             hHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHH
Confidence            3567889999999999999999999999876 2347789999999999999999999999998876221 1234445556


Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHHcC
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL--DSYTMLIHGLCEKQ  234 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g  234 (302)
                      ..-.+.|+.+.+..+|+......  +--...|+..++.=.++|+.+.++.+|+++...++.|-.  ..|...+..=-..|
T Consensus      1608 qLEFk~GDaeRGRtlfEgll~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~G 1685 (1710)
T KOG1070|consen 1608 QLEFKYGDAERGRTLFEGLLSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHG 1685 (1710)
T ss_pred             HHHhhcCCchhhHHHHHHHHhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcC
Confidence            66678999999999999999886  667789999999999999999999999999998877643  45666666555566


Q ss_pred             CHHHHHHH
Q 022131          235 KWKEACQY  242 (302)
Q Consensus       235 ~~~~a~~~  242 (302)
                      +-+.+..+
T Consensus      1686 de~~vE~V 1693 (1710)
T KOG1070|consen 1686 DEKNVEYV 1693 (1710)
T ss_pred             chhhHHHH
Confidence            65544443

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

Probab=98.92  E-value=1.4e-06  Score=64.34  Aligned_cols=156  Identities=15%  Similarity=0.174  Sum_probs=115.9

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      +-.|...|+++.+....+.+..    |.        ..+...++.+++...++...+... .+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCH
Confidence            3467788888776544322211    10        022236677888888888777644 6788999999999999999


Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHH-HhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVPNMHSYNILIGMF-MALNR--MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      ++|...+++..+..  +.+...+..+..++ ...|+  .++|.+++++..+.. +-+...+..+...+...|++++|+..
T Consensus        90 ~~A~~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~  166 (198)
T PRK10370         90 DNALLAYRQALQLR--GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIEL  166 (198)
T ss_pred             HHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999998886  56788888888764 66676  589999999998863 33778888888889999999999999


Q ss_pred             HHHHHHCCCCCchhhH
Q 022131          243 FVEMIEKGLLPQKVTF  258 (302)
Q Consensus       243 ~~~~~~~~~~p~~~~~  258 (302)
                      |+++.+. .+|+..-+
T Consensus       167 ~~~aL~l-~~~~~~r~  181 (198)
T PRK10370        167 WQKVLDL-NSPRVNRT  181 (198)
T ss_pred             HHHHHhh-CCCCccHH
Confidence            9999875 35555443

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

Probab=98.92  E-value=2.7e-07  Score=77.48  Aligned_cols=228  Identities=9%  Similarity=0.067  Sum_probs=169.8

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +...+.+.|-...|..+|+++.         .|..++.+|..          .|+..+|..+..+-.++  +||+..|..
T Consensus       404 laell~slGitksAl~I~Erle---------mw~~vi~CY~~----------lg~~~kaeei~~q~lek--~~d~~lyc~  462 (777)
T KOG1128|consen  404 LAELLLSLGITKSALVIFERLE---------MWDPVILCYLL----------LGQHGKAEEINRQELEK--DPDPRLYCL  462 (777)
T ss_pred             HHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHH----------hcccchHHHHHHHHhcC--CCcchhHHH
Confidence            4556777888888888888764         46677778888          66677788887777764  788888888


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      +........-+++|.++.+..-..       .-..+.....+.++++++.+.|+.-.+... ....+|-.+--+..+.++
T Consensus       463 LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek  534 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEK  534 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhh
Confidence            888776666677777777654322       222333334457899999999988777643 467788888888888999


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      +..+.+.|.......  +.+...||++-.+|.+.++..+|...+.+..+.+ .-+...|...+....+.|.+++|++.+.
T Consensus       535 ~q~av~aF~rcvtL~--Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~  611 (777)
T KOG1128|consen  535 EQAAVKAFHRCVTLE--PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYH  611 (777)
T ss_pred             hHHHHHHHHHHhhcC--CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHH
Confidence            999999998888774  5667889999999999999999999999998876 4566777778888889999999999998


Q ss_pred             HHHHCC-CCCchhhHHHHHHH
Q 022131          245 EMIEKG-LLPQKVTFETLYRG  264 (302)
Q Consensus       245 ~~~~~~-~~p~~~~~~~l~~~  264 (302)
                      ++.+.. ..-|......++..
T Consensus       612 rll~~~~~~~d~~vl~~iv~~  632 (777)
T KOG1128|consen  612 RLLDLRKKYKDDEVLLIIVRT  632 (777)
T ss_pred             HHHHhhhhcccchhhHHHHHH
Confidence            886431 11244444444433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.91  E-value=4.8e-07  Score=69.22  Aligned_cols=188  Identities=7%  Similarity=-0.016  Sum_probs=121.7

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCC-c-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh--hhH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGIC-P-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSA--ETY  152 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  152 (302)
                      .....+-.+...+...|+++.|...++++...... | ...++..+..++.+.|++++|...++++.+.......  .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            35667777888888899999999999988776421 1 1246677888888999999999999998876432111  134


Q ss_pred             HHHHHHHHcc--------CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 022131          153 NCFFKEYRGR--------KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYT  224 (302)
Q Consensus       153 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (302)
                      ..+..++...        |+.++|.+.++.+....  +.+...+..+.....    ...      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HHH--------HHHH
Confidence            4455555543        66778888888887764  223233222211100    000      000        0112


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCC--CCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          225 MLIHGLCEKQKWKEACQYFVEMIEKG--LLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .+...+.+.|++.+|...+++..+..  -+.....+..+..++...|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45566788899999999888887641  1123467778888888999999998888877654

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).

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

Probab=98.91  E-value=1.6e-05  Score=64.08  Aligned_cols=156  Identities=12%  Similarity=0.091  Sum_probs=102.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHH----HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHH
Q 022131          127 CGRIEDAEELLGEMVRNGVCPSAETYNCFFK----EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMD  202 (302)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (302)
                      ..+.+.+.++++..++. ++....||.-+--    .-.++.+...|.+++......   -|-..+|...|..=.+.+++|
T Consensus       379 ~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~---cPK~KlFk~YIelElqL~efD  454 (677)
T KOG1915|consen  379 AEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK---CPKDKLFKGYIELELQLREFD  454 (677)
T ss_pred             hhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc---CCchhHHHHHHHHHHHHhhHH
Confidence            34555555555555552 2223333333322    223556667777777766654   466677777777777788888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCchhhHHHHHHHHhhcchHHHHHHHHHhc
Q 022131          203 MVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG-LLPQKVTFETLYRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  281 (302)
                      .+..++++.+..+ +-|..+|......=...|+.+.|..+|.-.+++. +......|...|.--...|.+++|..+++++
T Consensus       455 RcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerl  533 (677)
T KOG1915|consen  455 RCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERL  533 (677)
T ss_pred             HHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHH
Confidence            8888888888763 3366777777777778888888888888887652 2223345556666666788888999888888


Q ss_pred             cccCCC
Q 022131          282 DEESIT  287 (302)
Q Consensus       282 ~~~~~~  287 (302)
                      .+....
T Consensus       534 L~rt~h  539 (677)
T KOG1915|consen  534 LDRTQH  539 (677)
T ss_pred             HHhccc
Confidence            765444

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.90  E-value=1.1e-06  Score=67.20  Aligned_cols=172  Identities=9%  Similarity=-0.036  Sum_probs=118.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCC-C-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCH--HHHHHHHHHHhcc-----
Q 022131           57 EKTIRNAEKVFDEMRVRGIE-P-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTV--ATYSSVVKCLCSC-----  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~-----  127 (302)
                      .+++++|...|+++...... | ...++..+..++.+.|++++|...++.+.+.......  .++..+..++...     
T Consensus        46 ~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~  125 (235)
T TIGR03302        46 SGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVD  125 (235)
T ss_pred             cCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhccccc
Confidence            57789999999998876321 1 1246778889999999999999999999887432111  2455556666554     


Q ss_pred             ---CCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022131          128 ---GRIEDAEELLGEMVRNGVCPSA-ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDM  203 (302)
Q Consensus       128 ---~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (302)
                         |+.++|.+.++.+.+..  |+. ..+..+....              .+...    . ......+...+.+.|++++
T Consensus       126 ~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~--------------~~~~~----~-~~~~~~~a~~~~~~g~~~~  184 (235)
T TIGR03302       126 RDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD--------------YLRNR----L-AGKELYVARFYLKRGAYVA  184 (235)
T ss_pred             CCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH--------------HHHHH----H-HHHHHHHHHHHHHcCChHH
Confidence               78899999999998763  333 2332221111              00000    0 0111245667889999999


Q ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          204 VREIWNDVKGSG--LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       204 a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      |...++...+..  .+.....+..+..++...|++++|..+++.+...
T Consensus       185 A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       185 AINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999999988752  1223578889999999999999999999888653

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).

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

Probab=98.89  E-value=8.6e-06  Score=67.93  Aligned_cols=210  Identities=11%  Similarity=0.158  Sum_probs=132.9

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhc---------c---cCCcchhhHHHHHHHHHHHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRR---------A---SLHPSERFEKTIRNAEKVFDE   69 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---------~---~~~~~~~~~~~~~~a~~~~~~   69 (302)
                      |.+|.+.|.+.|.+++|.++|++....  ..++.-|+.+.++|+.-         +   ......+..-+++-...-|+.
T Consensus       251 w~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~  328 (835)
T KOG2047|consen  251 WCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFES  328 (835)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHH
Confidence            789999999999999999999998876  44666777777777651         0   000011112233444455555


Q ss_pred             HHhcC-----------CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc------CHHHHHHHHHHHhccCCHHH
Q 022131           70 MRVRG-----------IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP------TVATYSSVVKCLCSCGRIED  132 (302)
Q Consensus        70 ~~~~~-----------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~~~  132 (302)
                      +....           -+-+...|..-...+  .|+..+....+.+..+. +.|      -...|..+.+.|-..|+++.
T Consensus       329 lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~  405 (835)
T KOG2047|consen  329 LMNRRPLLLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDD  405 (835)
T ss_pred             HHhccchHHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHH
Confidence            44432           112333444433333  56677777778777654 222      23457888899999999999


Q ss_pred             HHHHHHHHHHCCCCCC---hhhHHHHHHHHHccCCchHHHHHHHHHHhCCC----------CCC------CHHHHHHHHH
Q 022131          133 AEELLGEMVRNGVCPS---AETYNCFFKEYRGRKDANGAMKLYRQMKEDGL----------CVP------NMHSYNILIG  193 (302)
Q Consensus       133 a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~------~~~~~~~l~~  193 (302)
                      |..+|++..+...+--   ..+|......=.++.+++.|+++.+...-...          .++      +...|...++
T Consensus       406 aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~D  485 (835)
T KOG2047|consen  406 ARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYAD  485 (835)
T ss_pred             HHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHH
Confidence            9999999887643211   34555556666778888888888887654321          011      2334555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC
Q 022131          194 MFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                      .--..|-++....+++++.+..+
T Consensus       486 leEs~gtfestk~vYdriidLri  508 (835)
T KOG2047|consen  486 LEESLGTFESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHHHhccHHHHHHHHHHHHHHhc
Confidence            66667778888888888776543

>PLN02789 farnesyltranstransferase

Probab=98.88  E-value=5.7e-06  Score=65.62  Aligned_cols=218  Identities=10%  Similarity=-0.014  Sum_probs=160.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCH--HHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH-QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRI--EDA  133 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--~~a  133 (302)
                      .+..++|+.+..++.+.. +-+..+|+.--.++...| ++++++..++++.+...+ +..+|+.....+.+.|+.  +++
T Consensus        50 ~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         50 DERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHH
Confidence            556688999999988874 225567777777777777 579999999999887644 666777666566666653  678


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc---CCH----HHHHH
Q 022131          134 EELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL---NRM----DMVRE  206 (302)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a~~  206 (302)
                      ..+++++.+... -+..+|+....++...|+++++++.+.++.+.+  +.|...|+.....+.+.   |..    ++...
T Consensus       128 l~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~  204 (320)
T PLN02789        128 LEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSELK  204 (320)
T ss_pred             HHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHHHH
Confidence            889989888754 578899999999999999999999999999987  57778887776666554   222    45666


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcc-------------
Q 022131          207 IWNDVKGSGLGPDLDSYTMLIHGLCEK----QKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSD-------------  269 (302)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-------------  269 (302)
                      ...+++.. .+-|...|+.+...+...    +...+|.+.+.+..+.+ ..+......|++.|....             
T Consensus       205 y~~~aI~~-~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~  282 (320)
T PLN02789        205 YTIDAILA-NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTVDTL  282 (320)
T ss_pred             HHHHHHHh-CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhhhcc
Confidence            66666665 345778888887777663    34566888888876643 335677788888887632             


Q ss_pred             -----hHHHHHHHHHhc
Q 022131          270 -----MLRTWRRLKKKL  281 (302)
Q Consensus       270 -----~~~~a~~~~~~~  281 (302)
                           ..++|.++++.+
T Consensus       283 ~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        283 AEELSDSTLAQAVCSEL  299 (320)
T ss_pred             ccccccHHHHHHHHHHH
Confidence                 346788888888

>PF12854 PPR_1: PPR repeat

Probab=98.87  E-value=3.7e-09  Score=53.31  Aligned_cols=34  Identities=24%  Similarity=0.358  Sum_probs=32.2

Q ss_pred             CCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          249 KGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       249 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      +|+.||..||+.||.+|++.|++++|.+++++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4789999999999999999999999999999984

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

Probab=98.84  E-value=3.2e-06  Score=62.73  Aligned_cols=154  Identities=14%  Similarity=-0.016  Sum_probs=68.3

Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      +-..+...|+-+....+........ +.|.......+....+.|++..|+..+++..... ++|..+|+.+.-+|.+.|+
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr  149 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGR  149 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccC
Confidence            3334444444444444444432221 1233333344444445555555555555444432 2444455555555555555


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      +++|..-|.+..+..  .-+...++.+.-.+.-.|+.+.|..++......+ .-|...-..+.......|+++.|..+.
T Consensus       150 ~~~Ar~ay~qAl~L~--~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         150 FDEARRAYRQALELA--PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             hhHHHHHHHHHHHhc--cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            555555554444443  2333344444444444455555555544444331 123344444444444455555544443

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

Probab=98.84  E-value=4.9e-07  Score=73.99  Aligned_cols=217  Identities=11%  Similarity=0.043  Sum_probs=164.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .|++.+|.-.|+.....+ +-+...|..|.......++-..|+..+++..+.... +....-.|.-.|...|.-.+|...
T Consensus       298 nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~Al~~  375 (579)
T KOG1125|consen  298 NGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQALKM  375 (579)
T ss_pred             cCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHHHHH
Confidence            566788888888888875 337889999999999999999999999999988633 677888888899999999999999


Q ss_pred             HHHHHHCCCCC--------ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022131          137 LGEMVRNGVCP--------SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIW  208 (302)
Q Consensus       137 ~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (302)
                      ++.-+...++-        +...-..  ..+..........++|-++......++|..+...|.-.|--.|++++|.+.|
T Consensus       376 L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf  453 (579)
T KOG1125|consen  376 LDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCF  453 (579)
T ss_pred             HHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHH
Confidence            99886643210        0000000  1111222234455555555444322578888899998999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch-hhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          209 NDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK-VTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       209 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      +..+... +-|..+||.|-..++...+..+|+..|.+.++  +.|+. .+...|.-+|...|.+++|...|-.
T Consensus       454 ~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  454 EAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            9998852 34678999999999999999999999999988  67875 4556678899999999999887644

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

Probab=98.81  E-value=9.4e-06  Score=60.34  Aligned_cols=163  Identities=11%  Similarity=0.035  Sum_probs=132.2

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      |... ..+-..+...|+-+....+........ +.|............+.|++..|...+++.....  ++|...|+.+.
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~--p~d~~~~~~lg  141 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA--PTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC--CCChhhhhHHH
Confidence            4444 666777788888888888887765442 2455566678889999999999999999998886  89999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHH
Q 022131          193 GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLR  272 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  272 (302)
                      -+|.+.|+.+.|..-|.+..+. ..-+....+.+.-.+.-.|+++.|..++......+ .-|...-..+..+....|+++
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L-~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALEL-APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHh-ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChH
Confidence            9999999999999999998886 23356778888888899999999999999987753 236677788888899999999


Q ss_pred             HHHHHHHhc
Q 022131          273 TWRRLKKKL  281 (302)
Q Consensus       273 ~a~~~~~~~  281 (302)
                      +|+.+...-
T Consensus       220 ~A~~i~~~e  228 (257)
T COG5010         220 EAEDIAVQE  228 (257)
T ss_pred             HHHhhcccc
Confidence            999876543

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

Probab=98.78  E-value=1.2e-06  Score=64.71  Aligned_cols=127  Identities=10%  Similarity=0.089  Sum_probs=103.1

Q ss_pred             cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHccCC--chHH
Q 022131           92 AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE-YRGRKD--ANGA  168 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a  168 (302)
                      .++.+++...++...+.+ +.+...|..+...|...|++++|...|++..+... .+...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            566677888888877765 44888999999999999999999999999988754 467777777776 467676  4899


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 022131          169 MKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSY  223 (302)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  223 (302)
                      .+++++..+.+  +.+...+..+...+.+.|++++|...|+++.+. .+|+..-+
T Consensus       130 ~~~l~~al~~d--P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~  181 (198)
T PRK10370        130 REMIDKALALD--ANEVTALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRT  181 (198)
T ss_pred             HHHHHHHHHhC--CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHH
Confidence            99999999987  667888899999999999999999999999886 44555444

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=2e-05  Score=68.95  Aligned_cols=133  Identities=10%  Similarity=0.025  Sum_probs=70.6

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      +...+-.|.....+.|..++|..+++...+... -+......+...+.+.+++++|....++...... -+......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~P-d~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFP-DSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHHHH
Confidence            455555555555555555555555555555421 1333445555555555555555555555555432 23444444555


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ++...|++++|..+|+++...+  +.+..++..+..++...|+.++|...|++..+.
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~--p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQH--PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5555555555555555555532  333555555555555555555555555555543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.75  E-value=2.6e-06  Score=59.48  Aligned_cols=94  Identities=11%  Similarity=-0.094  Sum_probs=58.1

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLC  231 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  231 (302)
                      +......+...|++++|...|+......  +.+...+..+..++...|++++|...|+..... -+.+...+..+..++.
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l-~p~~~~a~~~lg~~l~  103 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ--PWSWRAHIALAGTWMMLKEYTTAINFYGHALML-DASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCCCcHHHHHHHHHHH
Confidence            3344555566666666666666666554  455666666666666666666666666666654 2335556666666666


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 022131          232 EKQKWKEACQYFVEMIE  248 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~  248 (302)
                      ..|++++|...|+...+
T Consensus       104 ~~g~~~eAi~~~~~Al~  120 (144)
T PRK15359        104 MMGEPGLAREAFQTAIK  120 (144)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666666655

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.75  E-value=2.1e-06  Score=59.95  Aligned_cols=95  Identities=4%  Similarity=-0.144  Sum_probs=56.0

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      +..+...+...|++++|...|+...... +.+...|..+..++.+.|++++|...|++...... .+...+..+..++..
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-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA-SHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHH
Confidence            3344555556666666666666665553 22555566666666666666666666666665432 355555666666666


Q ss_pred             cCCchHHHHHHHHHHhC
Q 022131          162 RKDANGAMKLYRQMKED  178 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~  178 (302)
                      .|++++|...|+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666666555

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=1.3e-05  Score=59.23  Aligned_cols=187  Identities=9%  Similarity=0.066  Sum_probs=129.9

Q ss_pred             HHHHHHHHHHHHHHHhc---C-CCCCHH-HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHH
Q 022131           57 EKTIRNAEKVFDEMRVR---G-IEPDVT-SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIE  131 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  131 (302)
                      ..+.++..+++.++...   | ..++.. .+..++-+....|+.+.|...++.+...- +-+..+-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            45667777777777642   3 444443 45556666677888888888888887653 334444333333455678888


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022131          132 DAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDV  211 (302)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (302)
                      +|+++++.+.+.+ +.|..++-.-+...-..|+.-+|++-+....+.-  ..|...|.-+...|...|++++|.-.++++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F--~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF--MNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh--cCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            8888888888775 3466677766777777788888888888877775  678888888888888888888888888888


Q ss_pred             HhCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHH
Q 022131          212 KGSGLGPDLDSYTMLIHGLCEKQ---KWKEACQYFVEMIE  248 (302)
Q Consensus       212 ~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~  248 (302)
                      .-. -|.+...+..+...+.-.|   +...+.++|.+..+
T Consensus       181 ll~-~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk  219 (289)
T KOG3060|consen  181 LLI-QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALK  219 (289)
T ss_pred             HHc-CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            764 2334555566666654443   56677777877765

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=8.1e-06  Score=61.89  Aligned_cols=264  Identities=13%  Similarity=0.111  Sum_probs=153.1

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |.+.+..+.+..+++.|++++..-.++. +.+......+-.+|..          ..++..|-..|+++...  .|...-
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~----------~Q~f~~AA~CYeQL~ql--~P~~~q   79 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYR----------LQEFALAAECYEQLGQL--HPELEQ   79 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHH----------HHHHHHHHHHHHHHHhh--ChHHHH
Confidence            5677888889999999999998887762 2266677778888888          88889999999888765  444444


Q ss_pred             HHH-HHHHHHhcCCchhHHHHHHHHHhcC-------------------C------------CcCHHHHHHHHHHHhccCC
Q 022131           82 FSI-VLHVYSRAHQPQLSLDKLNFMKEKG-------------------I------------CPTVATYSSVVKCLCSCGR  129 (302)
Q Consensus        82 ~~~-ll~~~~~~~~~~~a~~~~~~~~~~~-------------------~------------~~~~~~~~~ll~~~~~~~~  129 (302)
                      |.. -...+.+.+.+..|+++...|.+..                   +            +-+..+.+...-...+.|+
T Consensus        80 YrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegq  159 (459)
T KOG4340|consen   80 YRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQ  159 (459)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeecccc
Confidence            432 2344556667777777766664320                   0            0011222222222345667


Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC------------CCCHH-----------
Q 022131          130 IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC------------VPNMH-----------  186 (302)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------------~~~~~-----------  186 (302)
                      ++.|.+-|+...+.+---....|+..+. ..+.++.+.|++...++.+.|+.            -||+.           
T Consensus       160 yEaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S  238 (459)
T KOG4340|consen  160 YEAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH
Confidence            7777777776666533233445554443 34556677777777777766640            01111           


Q ss_pred             ----HHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHH
Q 022131          187 ----SYNILIGMFMALNRMDMVREIWNDVKGS-GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETL  261 (302)
Q Consensus       187 ----~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  261 (302)
                          .+|.-...+.+.++.+.|.+.+-.|.-+ ....|+.|...+.-. -..+++.+..+-+.-+.+.+ +-...||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n-PfP~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN-PFPPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC-CCChHHHHHH
Confidence                1111122233556666666665555432 122345555443322 12344444555555554432 2345788888


Q ss_pred             HHHHhhcchHHHHHHHHHhc
Q 022131          262 YRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       262 ~~~~~~~g~~~~a~~~~~~~  281 (302)
                      +-.|++..-++-|-.++.+-
T Consensus       317 LllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhC
Confidence            88888888888888887654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.73  E-value=8.5e-06  Score=71.19  Aligned_cols=145  Identities=7%  Similarity=0.024  Sum_probs=109.9

Q ss_pred             CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHH
Q 022131          111 CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNI  190 (302)
Q Consensus       111 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  190 (302)
                      +.+...+..|.....+.|++++|+.+++...+... -+......+...+.+.+++++|....++.....  +.+......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~P-d~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFP-DSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SSSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CCCHHHHHH
Confidence            44677888888888888888888888888887632 345667777788888888888888888888875  566677777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH
Q 022131          191 LIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFET  260 (302)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  260 (302)
                      +..++.+.|++++|..+|+++... .+-+..++..+..++...|+.++|...|++..+. ..|....|+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~  227 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTR  227 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHH
Confidence            778888888888888888888873 2334677888888888888888888888888765 2333444433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.72  E-value=3.4e-05  Score=57.17  Aligned_cols=188  Identities=11%  Similarity=0.086  Sum_probs=141.4

Q ss_pred             cCCcchHHHHHHHHHhC---C-CcccHH-HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131           12 INRIDMAERFLGEMIER---G-VEPNVV-TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus        12 ~g~~~~a~~~~~~~~~~---~-~~~~~~-~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      ..+.++..+++.++...   | ..++.. .|..++-+...          .++.+.|...++++..+- +-+..+-..-.
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld----------~~~~~lAq~C~~~L~~~f-p~S~RV~~lka   93 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALD----------TGRDDLAQKCINQLRDRF-PGSKRVGKLKA   93 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHH----------hcchHHHHHHHHHHHHhC-CCChhHHHHHH
Confidence            35678899999888754   4 455554 34445555555          778889999999988763 32333333333


Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  166 (302)
                      ..+-..|++++|+++++.+.+.+ +.|..++-.-+...-..|+..+|++-+....+. +..|...|..+...|...|+++
T Consensus        94 m~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~  171 (289)
T KOG3060|consen   94 MLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFE  171 (289)
T ss_pred             HHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHH
Confidence            34556899999999999999987 447777777777777788888999988888876 5579999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN---RMDMVREIWNDVKGS  214 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  214 (302)
                      +|.-.++++.-..  |.++..+..+...+.-.|   +...+.+.+.+..+.
T Consensus       172 kA~fClEE~ll~~--P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  172 KAAFCLEELLLIQ--PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            9999999999885  566666666666554443   567788899988875

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

Probab=98.71  E-value=2.4e-05  Score=62.05  Aligned_cols=187  Identities=11%  Similarity=0.023  Sum_probs=92.6

Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHH
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      .+.|+.+....+...+.... .-+...|..-.......++++.|+.+-++.++.+. .+...+-.-...+...+++++|.
T Consensus       277 ~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~  354 (564)
T KOG1174|consen  277 GQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAV  354 (564)
T ss_pred             HhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHH
Confidence            34444444444444443331 11222333333333444555555555555554422 22333333334455566666666


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHH-HcCCHHHHHHHHHHHH
Q 022131          170 KLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLI-HGLC-EKQKWKEACQYFVEMI  247 (302)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li-~~~~-~~g~~~~a~~~~~~~~  247 (302)
                      -.|+......  +-+..+|.-|+.+|...|.+.+|..+-+...+. ++-+..+...+- ..|. ...--++|..++++..
T Consensus       355 IaFR~Aq~La--p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L  431 (564)
T KOG1174|consen  355 IAFRTAQMLA--PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL  431 (564)
T ss_pred             HHHHHHHhcc--hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh
Confidence            6666665553  445666666666666666666666555544432 223333433331 1111 1122355555555544


Q ss_pred             HCCCCCch-hhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          248 EKGLLPQK-VTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       248 ~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      .  +.|+. .....+...|...|..+.+..++++-..
T Consensus       432 ~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~  466 (564)
T KOG1174|consen  432 K--INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI  466 (564)
T ss_pred             c--cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh
Confidence            3  34443 3445556667777777777777766443

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

Probab=98.71  E-value=2.5e-05  Score=58.26  Aligned_cols=139  Identities=12%  Similarity=0.018  Sum_probs=73.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh--
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA--  197 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  197 (302)
                      -...|...|++++|++......      +......=+..+.+..+.+-|...++.|.+-    .+..+.+.|.+++.+  
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i----ded~tLtQLA~awv~la  183 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI----DEDATLTQLAQAWVKLA  183 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc----chHHHHHHHHHHHHHHh
Confidence            3344556666666665555411      2222222233344555556666666666553    244555555555543  


Q ss_pred             --cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcch
Q 022131          198 --LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDM  270 (302)
Q Consensus       198 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  270 (302)
                        .+...+|..+|++|.++ .+|+..+.+-...++...|++++|..++++..++. .-++.+...++-.....|.
T Consensus       184 ~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gk  256 (299)
T KOG3081|consen  184 TGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGK  256 (299)
T ss_pred             ccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCC
Confidence              23455666666666554 45666666666666666666666666666665542 2244455444444444443

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

Probab=98.70  E-value=9.9e-06  Score=71.77  Aligned_cols=136  Identities=11%  Similarity=0.070  Sum_probs=74.2

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHH-HHHHhcccCCcchhh--------HHHHHHHHHHHHHHHh
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLL-NGVCRRASLHPSERF--------EKTIRNAEKVFDEMRV   72 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll-~~~~~~~~~~~~~~~--------~~~~~~a~~~~~~~~~   72 (302)
                      +..|+..+...+++++|.++.+...+.  .|+...+-.+. ..+.+.+....+.-+        ..++.-...+...+..
T Consensus        34 ~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~  111 (906)
T PRK14720         34 LDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILL  111 (906)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHh
Confidence            457888999999999999999977665  45443332222 234442221110000        1111112222222222


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           73 RGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        73 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      .  .-+...+-.+..+|-+.|+.+++..+++++.+.. +-+..+.|.+...|+.. ++++|+.++.+....
T Consensus       112 ~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        112 Y--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             h--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence            1  1123455556666666667777777777666665 33566666666666666 666666666665543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.69  E-value=2.8e-08  Score=50.90  Aligned_cols=34  Identities=47%  Similarity=0.897  Sum_probs=32.5

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNV   34 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~   34 (302)
                      +||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6999999999999999999999999999999984

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.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.67  E-value=3.3e-06  Score=58.49  Aligned_cols=96  Identities=14%  Similarity=0.043  Sum_probs=55.5

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      .....+...+...|++++|.+.++.+...+  +.+...+..+...+...|++++|...++...+.+ +.+...+..+..+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            334444555556666666666666665543  4455555666666666666666666666655542 3344555555556


Q ss_pred             HHHcCCHHHHHHHHHHHHH
Q 022131          230 LCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       230 ~~~~g~~~~a~~~~~~~~~  248 (302)
                      +...|++++|...|+...+
T Consensus        95 ~~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        95 LLALGEPESALKALDLAIE  113 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666655

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=98.65  E-value=0.0001  Score=61.89  Aligned_cols=109  Identities=7%  Similarity=0.035  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC----------
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPD---LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP----------  253 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p----------  253 (302)
                      .|..+.+.|-..|+.+.|..+|++..+-..+--   ..+|......=.++.+++.|++++++.....-.|          
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            356677777788888888888888776533322   3455555555667778888888877765321111          


Q ss_pred             -------chhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhhh
Q 022131          254 -------QKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQNY  295 (302)
Q Consensus       254 -------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  295 (302)
                             +...|+.+++.--..|-++....+++++.+-.+.-+....++
T Consensus       469 vQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~Ny  517 (835)
T KOG2047|consen  469 VQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINY  517 (835)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence                   123455555666667778888888888877777666665554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.64  E-value=7.1e-05  Score=69.04  Aligned_cols=268  Identities=10%  Similarity=-0.014  Sum_probs=170.2

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccH----HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----CC-CCC
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNV----VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----GI-EPD   78 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~   78 (302)
                      .+...|++++|...++.....-...+.    ...+.+...+..          .|++++|...+++....    |. .+.
T Consensus       461 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~----------~G~~~~A~~~~~~al~~~~~~g~~~~~  530 (903)
T PRK04841        461 VAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHC----------KGELARALAMMQQTEQMARQHDVYHYA  530 (903)
T ss_pred             HHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHHhhhcchHHH
Confidence            456789999999999988763111111    223334444455          67778888887777642    11 111


Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCC--c-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GIC--P-TVATYSSVVKCLCSCGRIEDAEELLGEMVRN----GVCP  147 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~  147 (302)
                      ..+...+...+...|+++.|...+++....    +..  + ....+..+...+...|++++|...+++....    +...
T Consensus       531 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~  610 (903)
T PRK04841        531 LWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQ  610 (903)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchH
Confidence            235566677888899999999998877543    221  1 2233445566677789999999999887653    1111


Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHH-----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSY-----NILIGMFMALNRMDMVREIWNDVKGSGLGPD---  219 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---  219 (302)
                      ....+..+...+...|++++|.+.+.+.............+     ...+..+...|+.+.|.+.+...........   
T Consensus       611 ~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~  690 (903)
T PRK04841        611 QLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFL  690 (903)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhH
Confidence            23344556667889999999999998885531101111111     1122445568899999999877654211111   


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          220 LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       220 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ...+..+..++...|++++|...+++....    |..++ ..+...+..++...|+.++|...+.+..+..
T Consensus       691 ~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        691 QGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            111345667788899999999999988653    33322 2355566678889999999998888766543

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

Probab=98.62  E-value=0.00025  Score=60.75  Aligned_cols=251  Identities=12%  Similarity=0.038  Sum_probs=175.8

Q ss_pred             cchHHHHHHHHHhCC-CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 022131           15 IDMAERFLGEMIERG-VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH   93 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   93 (302)
                      ..++++.+++..+.+ ..|++..|-.+  -|+.          .++++.|.+..++..+.+-..+...|..+.-.+...+
T Consensus       460 h~kslqale~av~~d~~dp~~if~lal--q~A~----------~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~k  527 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFDPTDPLVIFYLAL--QYAE----------QRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQK  527 (799)
T ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHH--HHHH----------HHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhh
Confidence            457788888887764 33444444333  3455          7789999999999999876778999999999999999


Q ss_pred             CchhHHHHHHHHHhc-CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHH-------------------------------
Q 022131           94 QPQLSLDKLNFMKEK-GICPTVATYSSVVKCLCSCGRIEDAEELLGEMV-------------------------------  141 (302)
Q Consensus        94 ~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-------------------------------  141 (302)
                      ++..|+.+.+..... |.  |......-+..-...++.++++.....+.                               
T Consensus       528 r~~~Al~vvd~al~E~~~--N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q  605 (799)
T KOG4162|consen  528 RLKEALDVVDAALEEFGD--NHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQ  605 (799)
T ss_pred             hhHHHHHHHHHHHHHhhh--hhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCccc
Confidence            999999998877554 21  00000000111111222222222111110                               


Q ss_pred             --------------------HCC---------CC--CC------hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC
Q 022131          142 --------------------RNG---------VC--PS------AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN  184 (302)
Q Consensus       142 --------------------~~~---------~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  184 (302)
                                          ..|         ..  |+      ...|......+...++.+++...+.+.....  +..
T Consensus       606 ~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~--~l~  683 (799)
T KOG4162|consen  606 PTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID--PLS  683 (799)
T ss_pred             ccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc--hhh
Confidence                                001         00  11      1235566667788888899988888887775  667


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH--HHHHHHHCCCCCchhhHHHHH
Q 022131          185 MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ--YFVEMIEKGLLPQKVTFETLY  262 (302)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~l~  262 (302)
                      ...|......+...|++.+|.+.|....... +-++....++..++.+.|+...|..  ++.++.+.+ +.+...|-.+.
T Consensus       684 ~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG  761 (799)
T KOG4162|consen  684 ASVYYLRGLLLEVKGQLEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLG  761 (799)
T ss_pred             HHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            7788888888999999999999999888752 3356788899999999999888888  999998853 44788999999


Q ss_pred             HHHhhcchHHHHHHHHHhccc
Q 022131          263 RGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ..+...|+.++|.+.|+-..+
T Consensus       762 ~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  762 EVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHHHHccchHHHHHHHHHHHh
Confidence            999999999999999876444

>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=98.61  E-value=4.6e-06  Score=67.54  Aligned_cols=123  Identities=13%  Similarity=0.191  Sum_probs=77.4

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFM  196 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (302)
                      ...++..+...++++.|..+++++.+..  |+  ....+++.+...++..+|.+++.+.....  +.+...+..-...+.
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--VAVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH
Confidence            3445555566667777777777776653  33  34446666666666667777777766553  445555565666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          197 ALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                      +.++.+.|..+.+++... .+-+-.+|..|..+|...|+++.|+..+..+
T Consensus       246 ~k~~~~lAL~iAk~av~l-sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL-SPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh-CchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            777777777777777664 2223446777777777777777777666644

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.60  E-value=0.00018  Score=58.41  Aligned_cols=119  Identities=13%  Similarity=-0.011  Sum_probs=70.5

Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022131          124 LCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDM  203 (302)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (302)
                      +...|.+++|+..++.+... .+-|+..+......+...++.++|.+.++.+....  +........+..++.+.|++.+
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-QPDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChHH
Confidence            34456666666666666554 22345555555666666666666666666666653  2224455556666666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          204 VREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                      |..+++..... .+-|+..|..|..+|...|+..++.....+.
T Consensus       393 ai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         393 AIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            66666666554 3446666666666666666555555444433

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

Probab=98.60  E-value=6.4e-05  Score=60.91  Aligned_cols=154  Identities=10%  Similarity=0.061  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS-AETYNCFFKEY  159 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  159 (302)
                      -|..-+. +...|+++.|...+..+...- +-|...+......+.+.++.++|.+.++++....  |+ ...+..+..++
T Consensus       309 ~YG~A~~-~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~al  384 (484)
T COG4783         309 QYGRALQ-TYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQAL  384 (484)
T ss_pred             HHHHHHH-HHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHH
Confidence            3444443 456889999999999988763 4466677788899999999999999999999863  44 67777888999


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      .+.|++.++..++.......  +.|+..|..|.++|...|+..++.....+                  .+...|+++.|
T Consensus       385 l~~g~~~eai~~L~~~~~~~--p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A  444 (484)
T COG4783         385 LKGGKPQEAIRILNRYLFND--PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQA  444 (484)
T ss_pred             HhcCChHHHHHHHHHHhhcC--CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHH
Confidence            99999999999999999886  78899999999999999998888775544                  45568999999


Q ss_pred             HHHHHHHHHCCCCCchhhHH
Q 022131          240 CQYFVEMIEKGLLPQKVTFE  259 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~~~~~  259 (302)
                      ...+....+. +.++..+|.
T Consensus       445 ~~~l~~A~~~-~~~~~~~~a  463 (484)
T COG4783         445 IIFLMRASQQ-VKLGFPDWA  463 (484)
T ss_pred             HHHHHHHHHh-ccCCcHHHH
Confidence            9999998776 445555543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.60  E-value=5.8e-06  Score=57.25  Aligned_cols=94  Identities=12%  Similarity=0.051  Sum_probs=47.4

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFM  196 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (302)
                      ...+...+...|++++|...++.+...+. .+...+..+...+...|++++|...+++..+.+  +.+...+..+...+.
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~   96 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD--PDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCChHHHHHHHHHHH
Confidence            34444444555555555555555544322 244444555555555555555555555554443  344444555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 022131          197 ALNRMDMVREIWNDVKG  213 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~  213 (302)
                      ..|++++|...|+...+
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        97 ALGEPESALKALDLAIE  113 (135)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.60  E-value=1.8e-05  Score=60.05  Aligned_cols=233  Identities=13%  Similarity=0.134  Sum_probs=162.2

Q ss_pred             CCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc
Q 022131           29 GVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK  108 (302)
Q Consensus        29 ~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  108 (302)
                      |+.....-+++.+..+.+          ..++++|++++..-.++. +.+....+.|..+|....++..|-..++++-..
T Consensus         5 g~~i~EGeftaviy~lI~----------d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql   73 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIR----------DARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL   73 (459)
T ss_pred             cccCCCCchHHHHHHHHH----------HhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333344456677777778          889999999999888874 237788899999999999999999999999776


Q ss_pred             CCCcCHHHHHH-HHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH--HHHccCCchHHHHHHHHHHhCCCCCCCH
Q 022131          109 GICPTVATYSS-VVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK--EYRGRKDANGAMKLYRQMKEDGLCVPNM  185 (302)
Q Consensus       109 ~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~  185 (302)
                        .|...-|.. -...+.+.+.+.+|+++...|.+.   |....-..-+.  ...+.+++..+..+.++....+    +.
T Consensus        74 --~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en----~A  144 (459)
T KOG4340|consen   74 --HPELEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN----EA  144 (459)
T ss_pred             --ChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC----cc
Confidence              344444432 345667788999999999988764   22222111111  2346788888888888776433    44


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC------------
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGS-GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLL------------  252 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~------------  252 (302)
                      .+.+.......+.|+.+.|.+-|+...+- |.. ....|+..+ ++.+.|+++.|++...+++++|++            
T Consensus       145 d~~in~gCllykegqyEaAvqkFqaAlqvsGyq-pllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~te  222 (459)
T KOG4340|consen  145 DGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQ-PLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTE  222 (459)
T ss_pred             chhccchheeeccccHHHHHHHHHHHHhhcCCC-chhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceec
Confidence            45555555566899999999999998874 444 445666444 456778999999999999887653            


Q ss_pred             -Cchh--------hHHHHH-------HHHhhcchHHHHHHHHHhccc
Q 022131          253 -PQKV--------TFETLY-------RGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       253 -p~~~--------~~~~l~-------~~~~~~g~~~~a~~~~~~~~~  283 (302)
                       ||..        .-+.++       ..+.+.|+++.|.+.+-.|..
T Consensus       223 giDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPP  269 (459)
T KOG4340|consen  223 GIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPP  269 (459)
T ss_pred             cCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCC
Confidence             2211        122233       334467888888888777754

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.58  E-value=1.9e-06  Score=55.29  Aligned_cols=85  Identities=19%  Similarity=0.354  Sum_probs=71.3

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCC-cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGV-EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS   83 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (302)
                      -|..+...+++.....+|+.+++.|+ .|++.+|+.++.+.+++..-.  ..+...+-+.+.+|++|...+++|+..+|+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~--~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDS--EDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccc--hhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            45667777999999999999999999 999999999999988743221  333667788999999999999999999999


Q ss_pred             HHHHHHHh
Q 022131           84 IVLHVYSR   91 (302)
Q Consensus        84 ~ll~~~~~   91 (302)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99987765

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 [, , ].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.58  E-value=0.00016  Score=56.49  Aligned_cols=126  Identities=9%  Similarity=0.033  Sum_probs=69.5

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-----------
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-----------   73 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----------   73 (302)
                      +..++.+.|++++|...|..+... -.|+...+..+.-++.-          .|.+.+|.++-....+.           
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~Fy----------Lg~Y~eA~~~~~ka~k~pL~~RLlfhla  131 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFY----------LGQYIEAKSIAEKAPKTPLCIRLLFHLA  131 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHH----------HHHHHHHHHHHhhCCCChHHHHHHHHHH
Confidence            445667889999999999887764 34555566555555555          66666666655443221           


Q ss_pred             ---CC-----------CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHH-HHHhccCCHHHHHHHHH
Q 022131           74 ---GI-----------EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV-KCLCSCGRIEDAEELLG  138 (302)
Q Consensus        74 ---~~-----------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~  138 (302)
                         +-           ..+...--+|.......-.+++|++++.+....+  |.....|..+ -+|.+..-++-+.+++.
T Consensus       132 hklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~  209 (557)
T KOG3785|consen  132 HKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLK  209 (557)
T ss_pred             HHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHH
Confidence               00           0000111112222222334567777777776653  3444444433 45566666777777777


Q ss_pred             HHHHC
Q 022131          139 EMVRN  143 (302)
Q Consensus       139 ~~~~~  143 (302)
                      -..+.
T Consensus       210 vYL~q  214 (557)
T KOG3785|consen  210 VYLRQ  214 (557)
T ss_pred             HHHHh
Confidence            66654

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

Probab=98.58  E-value=0.00015  Score=56.31  Aligned_cols=222  Identities=14%  Similarity=0.082  Sum_probs=155.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCC--HHH------------HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPD--VTS------------FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVK  122 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~--~~~------------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  122 (302)
                      .|.+++|..-|+...+.....+  ...            ....+..+...|+...|+..+..+++.. +-|...+..-..
T Consensus       119 ~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rak  197 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAK  197 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHH
Confidence            6778888888888887642111  111            2223445566788888998888888875 347888888888


Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHH-------HH----
Q 022131          123 CLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYN-------IL----  191 (302)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------~l----  191 (302)
                      +|...|++..|+.=+....+... .++.++.-+-..+...|+.+.++...++..+.+   ||....-       .+    
T Consensus       198 c~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld---pdHK~Cf~~YKklkKv~K~l  273 (504)
T KOG0624|consen  198 CYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKLD---PDHKLCFPFYKKLKKVVKSL  273 (504)
T ss_pred             HHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC---cchhhHHHHHHHHHHHHHHH
Confidence            99999999999887777766532 466677777788888999999998888888773   5543221       11    


Q ss_pred             --HHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc-hhhHHHHHHHH
Q 022131          192 --IGMFMALNRMDMVREIWNDVKGSGLGPDL---DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ-KVTFETLYRGL  265 (302)
Q Consensus       192 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~  265 (302)
                        +......++|.++.+..+...+.......   ..+..+-.++...|++.+|++...+..+  +.|| ..++.--..+|
T Consensus       274 es~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~  351 (504)
T KOG0624|consen  274 ESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAY  351 (504)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHH
Confidence              12234567777888877777765322122   2344455666778999999999999877  4565 77888888888


Q ss_pred             hhcchHHHHHHHHHhccccC
Q 022131          266 IQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       266 ~~~g~~~~a~~~~~~~~~~~  285 (302)
                      .-...++.|+.=++...+.+
T Consensus       352 l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  352 LGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             hhhHHHHHHHHHHHHHHhcC
Confidence            88888898888887766543

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

Probab=98.57  E-value=0.00029  Score=59.22  Aligned_cols=94  Identities=13%  Similarity=0.146  Sum_probs=63.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhc
Q 022131          190 ILIGMFMALNRMDMVREIWNDVKGSGLGPDL-DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQS  268 (302)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  268 (302)
                      .+++.+-+.|+++.|...++...++  .|+. ..|..=.+.+.++|+++.|...+++..+.+ .||...=..-..-..++
T Consensus       376 ~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrA  452 (700)
T KOG1156|consen  376 FLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRA  452 (700)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHc
Confidence            3556666777888888887777765  3432 344444567777888888888888776653 34554444556666777


Q ss_pred             chHHHHHHHHHhccccCC
Q 022131          269 DMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       269 g~~~~a~~~~~~~~~~~~  286 (302)
                      ++.++|.++...+.+.|.
T Consensus       453 n~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  453 NEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             cccHHHHHHHHHhhhccc
Confidence            888888888777777665

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

Probab=98.57  E-value=0.00013  Score=61.13  Aligned_cols=85  Identities=13%  Similarity=0.072  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .+++++|++.|......+ +.|...+.-+.-.-++.++++..........+.. +.....|..+..++.-.|+...|..+
T Consensus        88 dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~i  165 (700)
T KOG1156|consen   88 DKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEI  165 (700)
T ss_pred             hhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555554443 2234444444444444445544444444444432 11233344444444445555555555


Q ss_pred             HHHHHHC
Q 022131          137 LGEMVRN  143 (302)
Q Consensus       137 ~~~~~~~  143 (302)
                      +++..+.
T Consensus       166 l~ef~~t  172 (700)
T KOG1156|consen  166 LEEFEKT  172 (700)
T ss_pred             HHHHHHh
Confidence            5554443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.56  E-value=9.4e-08  Score=48.55  Aligned_cols=32  Identities=34%  Similarity=0.549  Sum_probs=30.8

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEP   32 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~   32 (302)
                      +||++|.+|++.|+++.|.++|++|.+.|++|
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            69999999999999999999999999999987

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.55  E-value=1.9e-07  Score=47.76  Aligned_cols=33  Identities=42%  Similarity=0.852  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ  254 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  254 (302)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            567777777777777777777777777777665

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.53  E-value=2.9e-05  Score=60.38  Aligned_cols=240  Identities=13%  Similarity=0.113  Sum_probs=150.2

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC-HHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD-VTSFS   83 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~   83 (302)
                      |+-.|.+.+++++|..+..++.-.  .|-......+.  .+..|.-..+   ...+.-|.+.|.-.-+.+..-| ..--.
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv--~aalGQe~gS---reHlKiAqqffqlVG~Sa~ecDTIpGRQ  363 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVV--FAALGQETGS---REHLKIAQQFFQLVGESALECDTIPGRQ  363 (557)
T ss_pred             heeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHH--HHHhhhhcCc---HHHHHHHHHHHHHhcccccccccccchH
Confidence            344577889999998887766422  22222222222  2222222222   4556667777766655543322 23445


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhH-HHHHHHHHcc
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETY-NCFFKEYRGR  162 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~  162 (302)
                      ++.+++.-..++++++..+..+...=...|..- -.+..+++..|.+.+|+++|-++....++ +..+| ..+.++|.+.
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn-~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~n  441 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIESYFTNDDDFN-LNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRN  441 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhh-hHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhc
Confidence            677777777888999999988877644434333 45788999999999999999888765554 44455 5566788999


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHS-YNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      +.++.|++++-.+...    .+..+ ...+..-|.+.+.+--|.+.|+.+...  .|++..|.         |+-....-
T Consensus       442 kkP~lAW~~~lk~~t~----~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnWe---------GKRGACaG  506 (557)
T KOG3785|consen  442 KKPQLAWDMMLKTNTP----SERFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENWE---------GKRGACAG  506 (557)
T ss_pred             CCchHHHHHHHhcCCc----hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCccccC---------CccchHHH
Confidence            9999998887665432    23333 344556788999999999999988875  57776663         44444455


Q ss_pred             HHHHHHHCCCCC-chhhHHHHHHHHhhc
Q 022131          242 YFVEMIEKGLLP-QKVTFETLYRGLIQS  268 (302)
Q Consensus       242 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~  268 (302)
                      +|..+....-.| ...+..-++......
T Consensus       507 ~f~~l~~~~~~~~p~~~~rEVvhllr~~  534 (557)
T KOG3785|consen  507 LFRQLANHKTDPIPISQMREVVHLLRMK  534 (557)
T ss_pred             HHHHHHcCCCCCCchhHHHHHHHHHHhC
Confidence            566555443322 123344444444433

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

Probab=98.53  E-value=2e-05  Score=69.93  Aligned_cols=194  Identities=8%  Similarity=0.029  Sum_probs=135.6

Q ss_pred             cCCCC-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH---------------
Q 022131           73 RGIEP-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL---------------  136 (302)
Q Consensus        73 ~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~---------------  136 (302)
                      .++.| +...+..|+..+...+++++|.++.+...+.... ....|-.+...+.+.++..++..+               
T Consensus        24 ~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~v  102 (906)
T PRK14720         24 NNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIV  102 (906)
T ss_pred             ccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHH
Confidence            34443 5678999999999999999999999977766321 233344444466666666655544               


Q ss_pred             ---HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          137 ---LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       137 ---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                         ...+.+.  .-+..++..+..+|-+.|+.+++..+|+++.+..  +.|+.+.|.+...|... ++++|.+++.+...
T Consensus       103 e~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~  177 (906)
T PRK14720        103 EHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEEE-DKEKAITYLKKAIY  177 (906)
T ss_pred             HHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence               2222221  1123567778888889999999999999999998  78899999999999999 99999999988776


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------------------C-CCCCchhhHHHHHHHHhhcchHHHH
Q 022131          214 SGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE------------------K-GLLPQKVTFETLYRGLIQSDMLRTW  274 (302)
Q Consensus       214 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~------------------~-~~~p~~~~~~~l~~~~~~~g~~~~a  274 (302)
                      .               +...+++..+.++|.++..                  . |..--..++..+...|...++++++
T Consensus       178 ~---------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~  242 (906)
T PRK14720        178 R---------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEV  242 (906)
T ss_pred             H---------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHH
Confidence            4               3333344444444444443                  2 2223344566666788888999999


Q ss_pred             HHHHHhccccCCC
Q 022131          275 RRLKKKLDEESIT  287 (302)
Q Consensus       275 ~~~~~~~~~~~~~  287 (302)
                      ..+++.+.+..-.
T Consensus       243 i~iLK~iL~~~~~  255 (906)
T PRK14720        243 IYILKKILEHDNK  255 (906)
T ss_pred             HHHHHHHHhcCCc
Confidence            9999998775544

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

Probab=98.52  E-value=0.00011  Score=54.99  Aligned_cols=171  Identities=13%  Similarity=0.125  Sum_probs=124.8

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 022131           66 VFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV  145 (302)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  145 (302)
                      +.+.+.......+......-...|...|++++|++......      +......=+..+.+..+.+-|...+++|.+.  
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i--  166 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI--  166 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--
Confidence            34444444344343444445567889999999999887721      3334444455677888999999999999985  


Q ss_pred             CCChhhHHHHHHHHHc----cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 022131          146 CPSAETYNCFFKEYRG----RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLD  221 (302)
Q Consensus       146 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (302)
                       .+..|.+.|..++.+    .+....|.-+|+++.+.-  +|+..+.+-...++...|++++|..+++....+. .-++.
T Consensus       167 -ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~--~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpe  242 (299)
T KOG3081|consen  167 -DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKT--PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPE  242 (299)
T ss_pred             -chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhccc--CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHH
Confidence             466777777776653    456889999999999864  7999999999999999999999999999999874 34677


Q ss_pred             HHHHHHHHHHHcCCHHH-HHHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKE-ACQYFVEMIE  248 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~-a~~~~~~~~~  248 (302)
                      +...++.+-...|...+ ..+.+..++.
T Consensus       243 tL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  243 TLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            77777766666676544 4455666654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.50  E-value=2.9e-07  Score=46.70  Aligned_cols=33  Identities=30%  Similarity=0.452  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 022131          221 DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP  253 (302)
Q Consensus       221 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p  253 (302)
                      .+|+.++.+|++.|+++.|.++|++|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            356666666666666666666666666666555

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.46  E-value=2.5e-05  Score=54.73  Aligned_cols=115  Identities=12%  Similarity=0.137  Sum_probs=64.3

Q ss_pred             cCCchhHHHHHHHHHhcCCCcC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHccCCch
Q 022131           92 AHQPQLSLDKLNFMKEKGICPT---VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS--AETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~  166 (302)
                      .++...+...++.+.+.... +   ....-.+...+...|++++|...|+.+......|.  ......+...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~-s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPS-SPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            56666666666666655321 2   22233344556666777777777777666542222  123344556666667777


Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWND  210 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (302)
                      +|+..++.....   ......+....+.+.+.|+.++|...|+.
T Consensus       103 ~Al~~L~~~~~~---~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDE---AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCc---chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            776666553322   23344455556666666666666666654

>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=98.46  E-value=1.4e-05  Score=64.84  Aligned_cols=127  Identities=13%  Similarity=0.138  Sum_probs=105.9

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      .....|++.+...++++.|..+++++.+..  |+  ....++..+...++-.+|.+++++..+.. +-+......-.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            445667778888899999999999999874  44  44457888888889999999999998753 24666777777889


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .+.++++.|+.+.+++.+..  +.+..+|..|..+|...|+++.|+..++.+..
T Consensus       245 l~k~~~~lAL~iAk~av~ls--P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELS--PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            99999999999999999985  56677999999999999999999999987653

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.44  E-value=0.00027  Score=58.73  Aligned_cols=224  Identities=10%  Similarity=0.006  Sum_probs=128.9

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIV   85 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   85 (302)
                      +..+...|++++|.+....++..+ +-+...+..=+-++.+          .+.+++|+.+.+.-...  ..+..-+-.=
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq----------~~ky~~ALk~ikk~~~~--~~~~~~~fEK   85 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQ----------LDKYEDALKLIKKNGAL--LVINSFFFEK   85 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhh----------hhHHHHHHHHHHhcchh--hhcchhhHHH
Confidence            344566788999999999888775 4455556665667777          78888888555442211  1111111223


Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      ..+..+.+..++|+..++-..+    .|..+...-...+.+.|++++|+.+|+.+.+++. ++.   ..-+++-+..--.
T Consensus        86 AYc~Yrlnk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~-dd~---d~~~r~nl~a~~a  157 (652)
T KOG2376|consen   86 AYCEYRLNKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS-DDQ---DEERRANLLAVAA  157 (652)
T ss_pred             HHHHHHcccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-chH---HHHHHHHHHHHHH
Confidence            4455678889999888883222    2344666677788899999999999999987654 221   1111111100000


Q ss_pred             hHHHHHHHHHHhCCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------CCCCH-------HHHHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVP--NMHSYNILIGMFMALNRMDMVREIWNDVKGSG-------LGPDL-------DSYTMLIHG  229 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~-------~~~~~li~~  229 (302)
                      ....+   .+..... .|  +...+-.....+...|++.+|+++++...+.+       -.-+.       ..--.+.-.
T Consensus       158 ~l~~~---~~q~v~~-v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayV  233 (652)
T KOG2376|consen  158 ALQVQ---LLQSVPE-VPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYV  233 (652)
T ss_pred             hhhHH---HHHhccC-CCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHH
Confidence            00111   1222222 22  22223333445667899999999998873211       11011       112234455


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCch
Q 022131          230 LCEKQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       230 ~~~~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                      +...|+-.+|..++...++.. .+|.
T Consensus       234 lQ~~Gqt~ea~~iy~~~i~~~-~~D~  258 (652)
T KOG2376|consen  234 LQLQGQTAEASSIYVDIIKRN-PADE  258 (652)
T ss_pred             HHHhcchHHHHHHHHHHHHhc-CCCc
Confidence            677899999999998888763 3444

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.44  E-value=7.8e-06  Score=66.60  Aligned_cols=122  Identities=16%  Similarity=0.193  Sum_probs=66.7

Q ss_pred             CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022131          147 PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC-VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTM  225 (302)
Q Consensus       147 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (302)
                      .+......++..+....+.+.+..++.+......+ ..-..|..++++.|...|..+.+.+++..=...|+-||..++|.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            34445555555555555555555555555444210 11122334666666666666666666666666666666666666


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhc
Q 022131          226 LIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQS  268 (302)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  268 (302)
                      |+..+.+.|++..|.++...|..++...+..|+..-+.+|.+-
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            6666666666666666666665555555555555444444433

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 [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.43  E-value=9.3e-06  Score=66.15  Aligned_cols=124  Identities=12%  Similarity=0.101  Sum_probs=101.2

Q ss_pred             CCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 022131           29 GVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG--IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMK  106 (302)
Q Consensus        29 ~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  106 (302)
                      +.+.+......+++.+..          ..+++.+..++-+.....  ...-..|.+++++.|.+.|..+.++.++..=.
T Consensus        61 ~~~vS~~dld~fvn~~~~----------~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~  130 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVES----------KDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRL  130 (429)
T ss_pred             CCCCcHHHHHHHHhhcCC----------HhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChh
Confidence            455667777777777777          778888888888887652  22234566799999999999999999999999


Q ss_pred             hcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 022131          107 EKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR  162 (302)
Q Consensus       107 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  162 (302)
                      ..|+-||..+++.+|+.+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       131 ~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  131 QYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999999999999988887767777777777776655

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.43  E-value=2.7e-05  Score=54.61  Aligned_cols=115  Identities=14%  Similarity=0.057  Sum_probs=51.4

Q ss_pred             cCCchHHHHHHHHHHhCCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHHcCCH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPN---MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL--DSYTMLIHGLCEKQKW  236 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~  236 (302)
                      .++...+...++.+....  +.+   ....-.+...+...|++++|...|+.+......|+.  ...-.+...+...|++
T Consensus        24 ~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            444555555555555443  122   112222334445555555555555555554311111  1222344455555555


Q ss_pred             HHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          237 KEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       237 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      ++|+..++......  .....+......+...|+.++|...|++
T Consensus       102 d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  102 DEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555554422211  1223334444555555555555555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.40  E-value=0.00096  Score=58.27  Aligned_cols=228  Identities=12%  Similarity=0.091  Sum_probs=148.6

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLH   87 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   87 (302)
                      .....+++.+|++....+.+.  .|+. .|..++.++....        .|..++|..+++.....+.. |..|...+-.
T Consensus        18 d~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r--------~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~   85 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFR--------LGKGDEALKLLEALYGLKGT-DDLTLQFLQN   85 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHH--------hcCchhHHHHHhhhccCCCC-chHHHHHHHH
Confidence            345678899999999998876  4444 3444555544311        67778888888887766544 8889999999


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc-cCCc-
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG-RKDA-  165 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~-  165 (302)
                      +|.+.++.++|..+|+.....  .|+......+..+|.|.+++.+-.++--++-+. .+-+...+=.+++.+.. ...+ 
T Consensus        86 ~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~  162 (932)
T KOG2053|consen   86 VYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSEN  162 (932)
T ss_pred             HHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCc
Confidence            999999999999999999876  467777888888999988887655444444433 22222222223333221 1111 


Q ss_pred             --------hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-HHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 022131          166 --------NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWN-DVKGSGLGPDLDSYTMLIHGLCEKQKW  236 (302)
Q Consensus       166 --------~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~li~~~~~~g~~  236 (302)
                              .-|.+.++.+.+.++..-+..-...-.......|++++|.+++. ...+.-..-+...-+.-+..+...+++
T Consensus       163 ~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w  242 (932)
T KOG2053|consen  163 ELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRW  242 (932)
T ss_pred             ccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcCh
Confidence                    23556666666654212222222333344557788999999984 444433334455556667777888889


Q ss_pred             HHHHHHHHHHHHCC
Q 022131          237 KEACQYFVEMIEKG  250 (302)
Q Consensus       237 ~~a~~~~~~~~~~~  250 (302)
                      .+..++-.++...|
T Consensus       243 ~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  243 QELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888888764

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.37  E-value=4.8e-07  Score=44.74  Aligned_cols=30  Identities=43%  Similarity=0.813  Sum_probs=28.3

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGV   30 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~   30 (302)
                      +||++|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            699999999999999999999999998864

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=98.33  E-value=0.00067  Score=55.80  Aligned_cols=235  Identities=12%  Similarity=0.045  Sum_probs=144.7

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH---
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS---   81 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---   81 (302)
                      +..+.-+..+++.|++-+.......  -++.-++..-.++..          .+.+.+....-+...+.|-. ...-   
T Consensus       230 lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e----------~~~~~~c~~~c~~a~E~gre-~rad~kl  296 (539)
T KOG0548|consen  230 LGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLE----------RGKYAECIELCEKAVEVGRE-LRADYKL  296 (539)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHh----------ccHHHHhhcchHHHHHHhHH-HHHHHHH
Confidence            4555667778888888888877764  455556666667777          44555544444444443321 1122   


Q ss_pred             ----HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           82 ----FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        82 ----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                          +..+..+|.+.++++.+...|++.......|+.         ..+....+++....+...-.+... ..-.-.-..
T Consensus       297 Iak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGn  366 (539)
T KOG0548|consen  297 IAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEK-AEEEREKGN  366 (539)
T ss_pred             HHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHH
Confidence                222334566667778888888876655433322         122334455555444444332221 111122255


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      .+.+.|++..|...|.++....  +.|...|....-+|.+.|.+..|+.-.+...+. -++....|..=..++....+++
T Consensus       367 e~Fk~gdy~~Av~~YteAIkr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL-~p~~~kgy~RKg~al~~mk~yd  443 (539)
T KOG0548|consen  367 EAFKKGDYPEAVKHYTEAIKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL-DPNFIKAYLRKGAALRAMKEYD  443 (539)
T ss_pred             HHHhccCHHHHHHHHHHHHhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CchHHHHHHHHHHHHHHHHHHH
Confidence            6678889999999999988886  778888999999999999999988888877775 2334445555555556667888


Q ss_pred             HHHHHHHHHHHCCCCCchhhHHHHHHHHhh
Q 022131          238 EACQYFVEMIEKGLLPQKVTFETLYRGLIQ  267 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  267 (302)
                      +|.+.|++.++.  .|+..-+.--+.-|..
T Consensus       444 kAleay~eale~--dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  444 KALEAYQEALEL--DPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHHHHHHHHhc--CchhHHHHHHHHHHHH
Confidence            888888888774  3555444444444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.32  E-value=0.00046  Score=63.79  Aligned_cols=237  Identities=11%  Similarity=0.017  Sum_probs=150.5

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhC----CCc-ccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIER----GVE-PNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----   73 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----   73 (302)
                      +.+...+...|++++|...+++....    |.. +...++..+...+..          .|+++.|...+++....    
T Consensus       495 ~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~----------~G~~~~A~~~~~~al~~~~~~  564 (903)
T PRK04841        495 SVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA----------QGFLQAAYETQEKAFQLIEEQ  564 (903)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHHHHHh
Confidence            34455677899999999999888653    111 112334444555666          56677777776665442    


Q ss_pred             CCC--C-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 022131           74 GIE--P-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC  146 (302)
Q Consensus        74 ~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  146 (302)
                      +..  + ....+..+...+...|++++|...+.+....    +.......+..+...+...|+.++|...+++.......
T Consensus       565 ~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~  644 (903)
T PRK04841        565 HLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGN  644 (903)
T ss_pred             ccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc
Confidence            211  1 2334455666777889999999998887553    21112334555667788899999999999887543111


Q ss_pred             -CChhhH-----HHHHHHHHccCCchHHHHHHHHHHhCCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 022131          147 -PSAETY-----NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN--MHSYNILIGMFMALNRMDMVREIWNDVKGS----  214 (302)
Q Consensus       147 -~~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  214 (302)
                       .....+     ...+..+...|+.+.+...+..........+.  ...+..+..++...|+.++|...+++....    
T Consensus       645 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~  724 (903)
T PRK04841        645 GRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSL  724 (903)
T ss_pred             ccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence             111111     11224455688999999988776543210110  111345677788899999999999887653    


Q ss_pred             CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          215 GLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       215 ~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      |..++ ..+...+..++...|+.++|...+.+..+.
T Consensus       725 g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        725 RLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             CchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            22222 245666777888999999999999999875

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

Probab=98.31  E-value=0.0016  Score=56.10  Aligned_cols=207  Identities=11%  Similarity=0.077  Sum_probs=138.6

Q ss_pred             CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC
Q 022131           30 VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG  109 (302)
Q Consensus        30 ~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  109 (302)
                      +.-|...|..+--+...          .|+++.+-+.|++.....+. ....|..+...+...|.-..|..+++.-....
T Consensus       319 ~qnd~ai~d~Lt~al~~----------~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~  387 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSR----------CGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKS  387 (799)
T ss_pred             hcchHHHHHHHHHHHHH----------HHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccc
Confidence            44466677777777777          88888888888887754332 56778888888888888888888888766554


Q ss_pred             CCc-CHHHHHHHHHHHh-ccCCHHHHHHHHHHHHHC--CC--CCChhhHHHHHHHHHcc-----------CCchHHHHHH
Q 022131          110 ICP-TVATYSSVVKCLC-SCGRIEDAEELLGEMVRN--GV--CPSAETYNCFFKEYRGR-----------KDANGAMKLY  172 (302)
Q Consensus       110 ~~~-~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~  172 (302)
                      ..| +...+-..-..|. +.+..++++.+-.+....  +.  ...+..+..+.-+|...           ....++++.+
T Consensus       388 ~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqal  467 (799)
T KOG4162|consen  388 EQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQAL  467 (799)
T ss_pred             cCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHH
Confidence            233 3333333333343 456777777777666652  11  12233444444444321           1124577778


Q ss_pred             HHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          173 RQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ++..+.+  +.|+.+.-.+.--|+..++.+.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+...+.
T Consensus       468 e~av~~d--~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E  542 (799)
T KOG4162|consen  468 EEAVQFD--PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE  542 (799)
T ss_pred             HHHHhcC--CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            8887776  34444444455566777889999999998888766678888988888888899999999988877643

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.30  E-value=2.1e-05  Score=50.70  Aligned_cols=77  Identities=13%  Similarity=0.404  Sum_probs=50.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHCCCCCchhhHHHH
Q 022131          191 LIGMFMALNRMDMVREIWNDVKGSGL-GPDLDSYTMLIHGLCEKQ--------KWKEACQYFVEMIEKGLLPQKVTFETL  261 (302)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~~~~~~~~p~~~~~~~l  261 (302)
                      .|..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..||+.+
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            34444455667777777777777666 667777777766655432        234566677777777777777777777


Q ss_pred             HHHHhh
Q 022131          262 YRGLIQ  267 (302)
Q Consensus       262 ~~~~~~  267 (302)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            776654

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 [, , ].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.30  E-value=0.0001  Score=62.98  Aligned_cols=186  Identities=15%  Similarity=0.160  Sum_probs=120.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .+.|.+|+.+++.+....  .-..-|..+...|+..|+++.|.++|.+.-         .++-.|.+|.+.|+|++|.++
T Consensus       745 akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kl  813 (1636)
T KOG3616|consen  745 AKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKL  813 (1636)
T ss_pred             hhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHH
Confidence            567778888888777653  234456777888888899988888886531         345567888999999998888


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                      -++...  .......|.+-..-.-.+|++.+|.+++-.+.     .|+     ..|.+|-+.|..+...++.++-...  
T Consensus       814 a~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~-----~p~-----~aiqmydk~~~~ddmirlv~k~h~d--  879 (1636)
T KOG3616|consen  814 AEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGD--  879 (1636)
T ss_pred             HHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----Cch-----HHHHHHHhhCcchHHHHHHHHhChh--
Confidence            766543  33455566666666677888888887775443     454     3477788888888877777654321  


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHH
Q 022131          217 GPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRL  277 (302)
Q Consensus       217 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  277 (302)
                       .-..|...+..-+-..|+...|..-|-+..+         |.+-++.|..++.|++|.++
T Consensus       880 -~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayri  930 (1636)
T KOG3616|consen  880 -HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRI  930 (1636)
T ss_pred             -hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHH
Confidence             1223455566666667777777766655432         33344444445555554444

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

Probab=98.30  E-value=0.0013  Score=54.13  Aligned_cols=88  Identities=17%  Similarity=0.029  Sum_probs=63.5

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCH-HHHHHHH
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDV-TSFSIVL   86 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll   86 (302)
                      +.+..|+++.|+..|.+..... ++|...|..-..+|++          .+++++|++=-.+-.+.  .|+. ..|+...
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~----------~~~~~~al~da~k~~~l--~p~w~kgy~r~G   77 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYAS----------LGSYEKALKDATKTRRL--NPDWAKGYSRKG   77 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHH----------HhhHHHHHHHHHHHHhc--CCchhhHHHHhH
Confidence            4567899999999999998874 4588889889999999          66776666554444443  4443 4667777


Q ss_pred             HHHHhcCCchhHHHHHHHHHhc
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEK  108 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~  108 (302)
                      .++.-.|++++|+.-|.+-++.
T Consensus        78 aa~~~lg~~~eA~~ay~~GL~~   99 (539)
T KOG0548|consen   78 AALFGLGDYEEAILAYSEGLEK   99 (539)
T ss_pred             HHHHhcccHHHHHHHHHHHhhc
Confidence            7777777777777777666554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.28  E-value=0.00026  Score=62.62  Aligned_cols=133  Identities=11%  Similarity=0.061  Sum_probs=75.4

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      ......+-+++|..+|+...     .+....+.++.-.             +.+++|.+.-++..      .+..|..+.
T Consensus      1056 ~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie~i-------------~~ldRA~efAe~~n------~p~vWsqla 1111 (1666)
T KOG0985|consen 1056 EIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIENI-------------GSLDRAYEFAERCN------EPAVWSQLA 1111 (1666)
T ss_pred             HHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHHHh-------------hhHHHHHHHHHhhC------ChHHHHHHH
Confidence            34556677888888887653     3455555665532             33444444333322      345666666


Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  166 (302)
                      .+-.+.|...+|++-|-+.      .|+..|..+++...+.|.+++-.+.+...++..-.|..  -+.++-+|++.++..
T Consensus      1112 kAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~ 1183 (1666)
T KOG0985|consen 1112 KAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLT 1183 (1666)
T ss_pred             HHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHH
Confidence            6666666666665544332      24556666666666666666666666666555443333  245556666666655


Q ss_pred             HHHHH
Q 022131          167 GAMKL  171 (302)
Q Consensus       167 ~a~~~  171 (302)
                      +..++
T Consensus      1184 elE~f 1188 (1666)
T KOG0985|consen 1184 ELEEF 1188 (1666)
T ss_pred             HHHHH
Confidence            54443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.28  E-value=0.00082  Score=59.68  Aligned_cols=129  Identities=14%  Similarity=0.145  Sum_probs=80.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .+-+++|..+|+...     .+....+.|+.-   .+..+.|.++-++..      .+..|..+..+-.+.|.+.+|++-
T Consensus      1061 ~~LyEEAF~ifkkf~-----~n~~A~~VLie~---i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieS 1126 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFD-----MNVSAIQVLIEN---IGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIES 1126 (1666)
T ss_pred             hhHHHHHHHHHHHhc-----ccHHHHHHHHHH---hhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHH
Confidence            556677777776643     245555555543   344555555444431      345677777777777777777665


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIW  208 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (302)
                      |-+.      .|+..|..+++...+.|.+++..+++....+... .|...  +.|+-+|++.++..+.++++
T Consensus      1127 yika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~-E~~id--~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1127 YIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVR-EPYID--SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhc-Cccch--HHHHHHHHHhchHHHHHHHh
Confidence            5433      3666777777777777877777777777666654 45443  55666777777666555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.28  E-value=0.002  Score=56.37  Aligned_cols=223  Identities=13%  Similarity=0.099  Sum_probs=150.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH--HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHV--YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAE  134 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  134 (302)
                      .+++.+|++....+...  -|+.. |...+.+  ..+.|..++|..+++.....+.. |..|...+-.+|...++.++|.
T Consensus        22 ~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            67788888888888776  34433 3333333  45789999999999988777655 8899999999999999999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC----------HHHH
Q 022131          135 ELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR----------MDMV  204 (302)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a  204 (302)
                      .+|++..+.  -|+......+..+|.+.+.+.+-.+.--++.+.-  +.+...+-++++.....-.          ..-|
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~--pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNF--PKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            999999886  4678888889999999988877655555555542  4455566666665554311          3356


Q ss_pred             HHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHH-HHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          205 REIWNDVKGSG-LGPDLDSYTMLIHGLCEKQKWKEACQYFV-EMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       205 ~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      .+.++.+.+.+ .--+..-.......+-..|++++|++++. ..-+.-..-+...-+.-+.-+...+++.+..++..++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            66677766653 11122222223344456889999999994 44343222233333445566667777777777776666


Q ss_pred             ccCCC
Q 022131          283 EESIT  287 (302)
Q Consensus       283 ~~~~~  287 (302)
                      ..|-.
T Consensus       254 ~k~~D  258 (932)
T KOG2053|consen  254 EKGND  258 (932)
T ss_pred             HhCCc
Confidence            65554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.26  E-value=0.00013  Score=62.99  Aligned_cols=235  Identities=15%  Similarity=0.107  Sum_probs=138.9

Q ss_pred             HHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHH--HHHHHHHhcCCCCCHHHHHHHH
Q 022131            9 WCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAE--KVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~--~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      |...|+.+.|.+-.+.++      +...|..+.+.|.+..+++-+.-..|....|.  +.+++..+.|-    .+=....
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~----e~eakvA  807 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE----EDEAKVA  807 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc----chhhHHH
Confidence            455688888887776665      44689999999999766665555555555443  34555555432    1212233


Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  166 (302)
                      ......|.+++|+.+|.+.++.         ..|=..|-..|.+++|+++-+.=-+..   -..||......+-..++.+
T Consensus       808 vLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~  875 (1416)
T KOG3617|consen  808 VLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIE  875 (1416)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHH
Confidence            3345678888999888887764         334455666788888887765433221   2345555555555666666


Q ss_pred             HHHHHHHHH----------HhCCC--------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------------
Q 022131          167 GAMKLYRQM----------KEDGL--------CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG-------------  215 (302)
Q Consensus       167 ~a~~~~~~~----------~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------  215 (302)
                      .|++.|++.          .....        .+.|...|..-.+.....|+++.|+.++....+.-             
T Consensus       876 ~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~  955 (1416)
T KOG3617|consen  876 AALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTD  955 (1416)
T ss_pred             HHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCch
Confidence            666665532          11110        02234445555555666788888888877765420             


Q ss_pred             -------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHH
Q 022131          216 -------LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTW  274 (302)
Q Consensus       216 -------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  274 (302)
                             -..|....-.+.+.|-..|++.+|..+|.+..         +|...|+.|...+.-++.
T Consensus       956 kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAIRlcKEnd~~d~L 1012 (1416)
T KOG3617|consen  956 KAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAIRLCKENDMKDRL 1012 (1416)
T ss_pred             HHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHHHHHHhcCHHHHH
Confidence                   01244455566666777777777777776653         345555555555544443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.25  E-value=0.00084  Score=51.37  Aligned_cols=184  Identities=6%  Similarity=0.029  Sum_probs=113.2

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHH---HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATY---SSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                      ...+-.....+.+.|++++|.+.|+.+...... +...-   -.+..++.+.+++++|...+++..+..+......+...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            333333445566789999999999999886433 23332   45667788999999999999999887443333344444


Q ss_pred             HHHHHc--cC---------------C---chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022131          156 FKEYRG--RK---------------D---ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG  215 (302)
Q Consensus       156 ~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (302)
                      +.+.+.  .+               +   ...|...|+.+.+.                |-...-..+|..-+..+... 
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~----------------yP~S~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG----------------YPNSQYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH----------------CcCChhHHHHHHHHHHHHHH-
Confidence            444331  10               1   12333444444444                22233344444444443321 


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          216 LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK--GLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       216 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                         =...--.+..-|.+.|.+..|..-++.+++.  +.+........+..+|...|..++|..+.+.+..
T Consensus       174 ---la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        174 ---LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             ---HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence               0111124566788899999999999999875  3333456677788999999999999888776543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.22  E-value=0.0001  Score=57.71  Aligned_cols=129  Identities=12%  Similarity=0.145  Sum_probs=67.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE-YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM  194 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (302)
                      +|..+++..-+.+..+.|..+|.+..+.+. .+...|...... +...++.+.|..+|+...+.-  +.+...|...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            455556666666666666666666654321 223333333333 222444555666666665553  4555556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          195 FMALNRMDMVREIWNDVKGSGLGPD---LDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +...++.+.|..+|++.... +.++   ...|...+..=.+.|+.+.+..+.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666554 2222   13566666666666666666666666655

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.21  E-value=0.00012  Score=49.20  Aligned_cols=97  Identities=9%  Similarity=-0.028  Sum_probs=48.1

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCC--cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC--CChhhHHHHHH
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGIC--PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC--PSAETYNCFFK  157 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~  157 (302)
                      +-.+...+.+.|++++|.+.+..+.+....  .....+..+..++.+.|++++|...|+.+......  .....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            334444555555666666666555543211  11233444555555556666666666555543211  11334444555


Q ss_pred             HHHccCCchHHHHHHHHHHhC
Q 022131          158 EYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      ++...|+.++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555555

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.21  E-value=5.9e-05  Score=48.13  Aligned_cols=87  Identities=17%  Similarity=0.200  Sum_probs=35.7

Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW  236 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  236 (302)
                      ..+...|++++|...+.+..+..  +.+...+..+...+...+++++|.+.++...... +.+..++..+...+...|++
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALELD--PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhH
Confidence            33344444444444444444332  2222333344444444444444444444443321 11223344444444444444


Q ss_pred             HHHHHHHHHH
Q 022131          237 KEACQYFVEM  246 (302)
Q Consensus       237 ~~a~~~~~~~  246 (302)
                      +.|...+...
T Consensus        85 ~~a~~~~~~~   94 (100)
T cd00189          85 EEALEAYEKA   94 (100)
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.20  E-value=4.2e-05  Score=59.91  Aligned_cols=131  Identities=16%  Similarity=0.192  Sum_probs=102.8

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM-FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      .+|..+++...+.+..+.|..+|.+..+.+.  .+..+|...... +...++.+.|..+|+...+. ++.+...|...+.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~--~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR--CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHH
Confidence            4688899999999999999999999997653  344555555554 33357777799999998886 6678899999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCch---hhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          229 GLCEKQKWKEACQYFVEMIEKGLLPQK---VTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .+...|+.+.|..+|++.... +.++.   ..|...++-=.+.|+++.+..+.+++.+.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999999865 33333   48888998888999999999999887764

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.18  E-value=0.00011  Score=53.46  Aligned_cols=93  Identities=16%  Similarity=0.267  Sum_probs=67.9

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----------------C
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH----------------Q   94 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------------~   94 (302)
                      ..+-.+|..+++.+.+.....     .|.++-....++.|.+.|+..|..+|+.||..+=+..                +
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~R-----RGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Q  118 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRR-----RGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQ  118 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCC-----cChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHH
Confidence            457888999998888753111     6788888888999999999999999999998876421                2


Q ss_pred             chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC
Q 022131           95 PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG  128 (302)
Q Consensus        95 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  128 (302)
                      -+-|++++++|...|+-||..++..+++.+++.+
T Consensus       119 q~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  119 QECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            2446667777777777777777777777766554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.16  E-value=3.5e-06  Score=41.55  Aligned_cols=29  Identities=41%  Similarity=0.770  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  250 (302)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.15  E-value=0.00018  Score=48.36  Aligned_cols=95  Identities=12%  Similarity=-0.062  Sum_probs=39.3

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHH
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKEDGLC-VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG--PDLDSYTMLIHGL  230 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~  230 (302)
                      .....+...|++++|...+..+...... +.....+..+..++.+.|+++.|...++.+......  .....+..+..++
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            3333444444444444444444433200 001223333444444555555555555544432100  1123344444444


Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 022131          231 CEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~  248 (302)
                      .+.|++++|...++++.+
T Consensus        87 ~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHhCChHHHHHHHHHHHH
Confidence            445555555555555444

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.14  E-value=8.2e-05  Score=47.43  Aligned_cols=92  Identities=15%  Similarity=0.157  Sum_probs=44.9

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          119 SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       119 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      .+...+...|++++|...+++..+... .+...+..+...+...+++++|.+.+.......  +.+..++..+...+...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD--PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHHHHHHHHHHH
Confidence            334444445555555555555544321 222344444455555555555555555554443  23334455555555555


Q ss_pred             CCHHHHHHHHHHHHh
Q 022131          199 NRMDMVREIWNDVKG  213 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~  213 (302)
                      |+.+.|...+....+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            555555555555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.14  E-value=0.00043  Score=61.13  Aligned_cols=216  Identities=11%  Similarity=0.043  Sum_probs=148.4

Q ss_pred             HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHH
Q 022131           58 KTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELL  137 (302)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  137 (302)
                      ++...++..|-+...... .=...|..|...|....+...|.+.|....+.+. .+..........|++..+++.|..+.
T Consensus       472 K~~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hhHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHH
Confidence            334555555555554421 1346788899999988899999999999988763 37778899999999999999999984


Q ss_pred             HHHHHCCC-CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 022131          138 GEMVRNGV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       138 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                      -..-+... ..-...|....-.|...++..++..-|+...+..  +.|...|..+..+|.+.|.+..|.++|.+....  
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d--PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--  625 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD--PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--  625 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC--chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--
Confidence            33333211 0112233334445678888999999999998886  789999999999999999999999999988774  


Q ss_pred             CCCHHHHHHHHH--HHHHcCCHHHHHHHHHHHHHC------CCCCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          217 GPDLDSYTMLIH--GLCEKQKWKEACQYFVEMIEK------GLLPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       217 ~~~~~~~~~li~--~~~~~g~~~~a~~~~~~~~~~------~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      .|+. +|...-.  .-+..|.+.+|+..+......      +..--..++..+...+.-.|-..++..++++
T Consensus       626 rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~ek  696 (1238)
T KOG1127|consen  626 RPLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEK  696 (1238)
T ss_pred             CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence            4443 3333222  236789999999998887643      1222234444444445555555555555544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.13  E-value=0.00014  Score=59.03  Aligned_cols=88  Identities=11%  Similarity=-0.059  Sum_probs=42.4

Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHH
Q 022131          123 CLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMD  202 (302)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (302)
                      .+...|++++|+..|++.++... .+...|..+..+|...|++++|+..++++....  +.+...|..+..+|...|+++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~--P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD--PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhCCHH
Confidence            33444555555555555554422 234444444445555555555555555554443  334444444444555555555


Q ss_pred             HHHHHHHHHHh
Q 022131          203 MVREIWNDVKG  213 (302)
Q Consensus       203 ~a~~~~~~~~~  213 (302)
                      +|...|++...
T Consensus        88 eA~~~~~~al~   98 (356)
T PLN03088         88 TAKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHHH
Confidence            55555555444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.10  E-value=0.00052  Score=58.91  Aligned_cols=138  Identities=15%  Similarity=0.197  Sum_probs=98.7

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC
Q 022131          121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR  200 (302)
Q Consensus       121 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (302)
                      +.+..+...|.+|+.+++.+.+...  ...-|..+...|+..|+++.|.++|.+.-          .++-.|.+|.+.|+
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhcccc
Confidence            4445566778888888888877633  34557777888889999988888886442          34567888899999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          201 MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      |..|.++-.+...  .......|-.-..-+-.+|++.+|.+++-...    .|+     ..|..|-+.|..+...++..+
T Consensus       807 w~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  807 WEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            9988887766543  34455666666666778888888888776542    343     346778888888888888765


Q ss_pred             c
Q 022131          281 L  281 (302)
Q Consensus       281 ~  281 (302)
                      -
T Consensus       876 ~  876 (1636)
T KOG3616|consen  876 H  876 (1636)
T ss_pred             h
Confidence            3

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.09  E-value=8.7e-05  Score=54.02  Aligned_cols=93  Identities=20%  Similarity=0.380  Sum_probs=75.4

Q ss_pred             hHHHHHHHHhc-----CCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhh-------HHHHHHHHHHHHH
Q 022131            2 YTSLIYGWCKI-----NRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERF-------EKTIRNAEKVFDE   69 (302)
Q Consensus         2 y~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~-------~~~~~~a~~~~~~   69 (302)
                      |..++..|.+.     |.++-....+..|.+-|+.-|..+|+.||+.+=+ |.+.+...+       ..+-+-|++++++
T Consensus        50 F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fvp~n~fQ~~F~hyp~Qq~c~i~lL~q  128 (228)
T PF06239_consen   50 FLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFVPRNFFQAEFMHYPRQQECAIDLLEQ  128 (228)
T ss_pred             HHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcccccHHHHHhccCcHHHHHHHHHHHH
Confidence            45566666544     7788888889999999999999999999999876 554433222       4456789999999


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCCc
Q 022131           70 MRVRGIEPDVTSFSIVLHVYSRAHQP   95 (302)
Q Consensus        70 ~~~~~~~~~~~~~~~ll~~~~~~~~~   95 (302)
                      |...|+-||..++..++..|++.+.+
T Consensus       129 ME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  129 MENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHcCCCCcHHHHHHHHHHhccccHH
Confidence            99999999999999999999877654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.06  E-value=0.0013  Score=56.02  Aligned_cols=143  Identities=12%  Similarity=0.026  Sum_probs=78.4

Q ss_pred             CCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCc--------hhHHH
Q 022131           29 GVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQP--------QLSLD  100 (302)
Q Consensus        29 ~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--------~~a~~  100 (302)
                      +.+.+...|...+++........     .+....|..+|++..+... -....+..+..++.....+        ..+.+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~-----~~~~~~A~~lle~Ai~ldP-~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~  405 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGD-----AKSLNKASDLLEEILKSEP-DFTYAQAEKALADIVRHSQQPLDEKQLAALST  405 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCC-----HHHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence            34567778888888755432222     5567788888888887732 1344555544433322111        12222


Q ss_pred             HHHHHHhc-CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          101 KLNFMKEK-GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       101 ~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      ........ ..+.+...|..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+.+.....
T Consensus       406 ~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        406 ELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            22222221 122344555555545555566666666666666653  455666666666666666666666666665553

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.06  E-value=0.00061  Score=53.61  Aligned_cols=199  Identities=13%  Similarity=0.118  Sum_probs=114.5

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhc----CCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCCC--hh
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEK----GICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRN----GVCPS--AE  150 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~  150 (302)
                      |......|...+++++|...|.+..+.    +-+. -...|.....+|.+. ++++|+..+++..+.    |- |+  ..
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~-~~~aA~  115 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGR-FSQAAK  115 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCc-HHHHHH
Confidence            334445566677777777766655322    1111 122344444444444 777777777766542    22 22  34


Q ss_pred             hHHHHHHHHHcc-CCchHHHHHHHHHHhC----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CCH
Q 022131          151 TYNCFFKEYRGR-KDANGAMKLYRQMKED----GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG-----PDL  220 (302)
Q Consensus       151 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~  220 (302)
                      .+..+...|... |+++.|.+.|.+..+.    +....-..++..+...+.+.|++++|.++|+++......     .+.
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhH
Confidence            566667777777 8999999998887543    210111345567778889999999999999988764322     122


Q ss_pred             H-HHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCc--hhhHHHHHHHHhhc--chHHHHHHHHHhcc
Q 022131          221 D-SYTMLIHGLCEKQKWKEACQYFVEMIEK--GLLPQ--KVTFETLYRGLIQS--DMLRTWRRLKKKLD  282 (302)
Q Consensus       221 ~-~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~~~--g~~~~a~~~~~~~~  282 (302)
                      . .|-..+-++...||+..|...+++....  ++..+  ......|+.++-..  ..++.+..-|+.+.
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            2 2334445667789999999999988654  22222  24556667776543  34555655555544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.04  E-value=1.3e-05  Score=50.36  Aligned_cols=18  Identities=6%  Similarity=0.185  Sum_probs=7.0

Q ss_pred             HHHHHhcCCHHHHHHHHH
Q 022131          192 IGMFMALNRMDMVREIWN  209 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~  209 (302)
                      ..++.+.|++++|..+++
T Consensus        32 a~~~~~~~~y~~A~~~~~   49 (84)
T PF12895_consen   32 AQCYFQQGKYEEAIELLQ   49 (84)
T ss_dssp             HHHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHH
Confidence            333333333333333333

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.03  E-value=0.0013  Score=57.25  Aligned_cols=241  Identities=13%  Similarity=0.089  Sum_probs=142.0

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhC-CC--------cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIER-GV--------EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMR   71 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~-~~--------~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~   71 (302)
                      +|..+.+.|.+..+.+-|.-.+-.|... |.        .|+. +-..+.-....          .|.+++|+.+|++-+
T Consensus       759 vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e-~eakvAvLAie----------LgMlEeA~~lYr~ck  827 (1416)
T KOG3617|consen  759 VWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEE-DEAKVAVLAIE----------LGMLEEALILYRQCK  827 (1416)
T ss_pred             HHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcc-hhhHHHHHHHH----------HhhHHHHHHHHHHHH
Confidence            4778888899998888887777776532 11        1111 11111111223          788899999998877


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHH----------H
Q 022131           72 VRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEM----------V  141 (302)
Q Consensus        72 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~----------~  141 (302)
                      ..         ..|=+.|...|.+++|.++-+.=-+..+   ..||......+-..++.+.|++.|++.          .
T Consensus       828 R~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL  895 (1416)
T KOG3617|consen  828 RY---------DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRML  895 (1416)
T ss_pred             HH---------HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHH
Confidence            54         3344556678889998887665433322   346666666666777888887777643          1


Q ss_pred             HCC---------CCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC-------------------CCCCHHHHHHHHH
Q 022131          142 RNG---------VCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL-------------------CVPNMHSYNILIG  193 (302)
Q Consensus       142 ~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------~~~~~~~~~~l~~  193 (302)
                      ...         -..|...|......+-..|+.+.|+.+|......-.                   ...|......|.+
T Consensus       896 ~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR  975 (1416)
T KOG3617|consen  896 KEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLAR  975 (1416)
T ss_pred             HhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHH
Confidence            111         123455566666666777888888887776543210                   1224444556677


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcc-hHH
Q 022131          194 MFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSD-MLR  272 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~  272 (302)
                      .|...|++.+|..+|.+..         ++...|+.|-.+ ++++-+.-+..|  .    ...-.....+.|...| ..+
T Consensus       976 ~YEn~g~v~~Av~FfTrAq---------afsnAIRlcKEn-d~~d~L~nlal~--s----~~~d~v~aArYyEe~g~~~~ 1039 (1416)
T KOG3617|consen  976 MYENDGDVVKAVKFFTRAQ---------AFSNAIRLCKEN-DMKDRLANLALM--S----GGSDLVSAARYYEELGGYAH 1039 (1416)
T ss_pred             HhhhhHHHHHHHHHHHHHH---------HHHHHHHHHHhc-CHHHHHHHHHhh--c----CchhHHHHHHHHHHcchhhh
Confidence            7777777777777776654         455566655444 333322222222  1    1122334455566666 778


Q ss_pred             HHHHHHHh
Q 022131          273 TWRRLKKK  280 (302)
Q Consensus       273 ~a~~~~~~  280 (302)
                      +|..++.+
T Consensus      1040 ~AVmLYHk 1047 (1416)
T KOG3617|consen 1040 KAVMLYHK 1047 (1416)
T ss_pred             HHHHHHHh
Confidence            88887765

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.02  E-value=0.00034  Score=48.59  Aligned_cols=88  Identities=10%  Similarity=0.009  Sum_probs=40.6

Q ss_pred             HHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCH
Q 022131          122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRM  201 (302)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (302)
                      ..+...|++++|..+|+.+....+ -+..-|..|..++-..|++++|+..|.......  +.|+..+-.+..++...|+.
T Consensus        43 ~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~--~ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         43 MQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK--IDAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCchHHHHHHHHHHHcCCH
Confidence            333444555555555554444322 233444444444444455555555554444443  33444444444444455555


Q ss_pred             HHHHHHHHHHH
Q 022131          202 DMVREIWNDVK  212 (302)
Q Consensus       202 ~~a~~~~~~~~  212 (302)
                      +.|.+.|+...
T Consensus       120 ~~A~~aF~~Ai  130 (157)
T PRK15363        120 CYAIKALKAVV  130 (157)
T ss_pred             HHHHHHHHHHH
Confidence            55554444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.02  E-value=0.0057  Score=50.79  Aligned_cols=209  Identities=8%  Similarity=0.026  Sum_probs=143.0

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---CCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           60 IRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRA---HQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        60 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      -+++.++++.....-...+..+|..+...--..   +..+.....+++++..-..--..+|..+|+...+..-++.|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            355566666655432233334444333221111   12556667777776553222345688889999999999999999


Q ss_pred             HHHHHHCCCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022131          137 LGEMVRNGVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG  215 (302)
Q Consensus       137 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (302)
                      |.+..+.+..+ +....+++|..||. ++.+-|.++|+--.+.-  ..++.-....++.+...++-..+..+|++....+
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf--~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKF--GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhc--CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            99999887666 66777888876654 57789999998877663  3445555677888889999999999999999886


Q ss_pred             CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-C--CCCchhhHHHHHHHHhhcchH
Q 022131          216 LGPD--LDSYTMLIHGLCEKQKWKEACQYFVEMIEK-G--LLPQKVTFETLYRGLIQSDML  271 (302)
Q Consensus       216 ~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~--~~p~~~~~~~l~~~~~~~g~~  271 (302)
                      ++|+  ...|..++.-=..-|+...+.++-+++... .  ..+....-..+++-|.-.+..
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~  526 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLY  526 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccc
Confidence            6654  478999999989999999999998887543 1  223334445556656555543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.02  E-value=0.0011  Score=56.50  Aligned_cols=146  Identities=13%  Similarity=0.004  Sum_probs=97.9

Q ss_pred             CCCcCHHHHHHHHHHHhcc-----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC--------CchHHHHHHHHH
Q 022131          109 GICPTVATYSSVVKCLCSC-----GRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK--------DANGAMKLYRQM  175 (302)
Q Consensus       109 ~~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~  175 (302)
                      +.+.+...|...+++....     ++...|..+|++..+... -....+..+..++....        +...+.+...+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP-~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEP-DFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            3456778888888875432     236788999999888643 23444444433332221        122333333333


Q ss_pred             HhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch
Q 022131          176 KEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                      ......+.+...+..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+++...  +.|..
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~  486 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGE  486 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCC
Confidence            3321114556777777667777899999999999999864  6888899999999999999999999999876  46666


Q ss_pred             hhHH
Q 022131          256 VTFE  259 (302)
Q Consensus       256 ~~~~  259 (302)
                      .||.
T Consensus       487 pt~~  490 (517)
T PRK10153        487 NTLY  490 (517)
T ss_pred             chHH
Confidence            6654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.00  E-value=0.00094  Score=48.31  Aligned_cols=63  Identities=10%  Similarity=-0.071  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT--VATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      .+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  101 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL  101 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444555555555666666666655554322211  234445555555555555555555555443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.00  E-value=0.0067  Score=50.90  Aligned_cols=266  Identities=10%  Similarity=0.074  Sum_probs=150.2

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHH---hcccCCcchh---h-HHHHHHHHHHHHHHHhcCCCC
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVC---RRASLHPSER---F-EKTIRNAEKVFDEMRVRGIEP   77 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~~~~~---~-~~~~~~a~~~~~~~~~~~~~~   77 (302)
                      |...+...|+.++|.+++...++.. ++|........+.+.   ....+....-   . ......+..+...+... -.-
T Consensus       230 layVlQ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~-qk~  307 (652)
T KOG2376|consen  230 LAYVLQLQGQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKK-QKQ  307 (652)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHH-HHH
Confidence            3445678899999999999998874 445443333322222   2111111000   0 00111111111111111 011


Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSC--GRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                      ....-+.++..|.  +..+.+.++-.....  ..| ...+..++..+.+.  .....+..++...-+............+
T Consensus       308 ~i~~N~~lL~l~t--nk~~q~r~~~a~lp~--~~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~  382 (652)
T KOG2376|consen  308 AIYRNNALLALFT--NKMDQVRELSASLPG--MSP-ESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLR  382 (652)
T ss_pred             HHHHHHHHHHHHh--hhHHHHHHHHHhCCc--cCc-hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHH
Confidence            1222233444442  222333333332221  122 33455555554433  2467778888777766443345566677


Q ss_pred             HHHHHccCCchHHHHHHH--------HHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHH---
Q 022131          156 FKEYRGRKDANGAMKLYR--------QMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--GLGPDLDS---  222 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~---  222 (302)
                      +......|+++.|.+++.        .+.+.+. .  +.+...+...+.+.++-+.|..++......  .-.+....   
T Consensus       383 aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~-~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~  459 (652)
T KOG2376|consen  383 AQLKISQGNPEVALEILSLFLESWKSSILEAKH-L--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLS  459 (652)
T ss_pred             HHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhcc-C--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHh
Confidence            788899999999999999        6666543 3  345566777778888877777777765541  11122222   


Q ss_pred             -HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          223 -YTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       223 -~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                       +.-+...-.+.|+-++|..+++++.+. -++|..+...++.+|++. +.+.|..+-+++.
T Consensus       460 ~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L~  518 (652)
T KOG2376|consen  460 LMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARL-DPEKAESLSKKLP  518 (652)
T ss_pred             HHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhc-CHHHHHHHhhcCC
Confidence             333334446779999999999999885 367888899999888876 4577777766654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.00  E-value=1.6e-05  Score=49.84  Aligned_cols=81  Identities=15%  Similarity=0.193  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIE-PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEE  135 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  135 (302)
                      .++++.|+.+++++.+.... |+...+-.+..++.+.|++++|..+++. .+.+.. +......+..++.+.|++++|+.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            35667777777777765321 2344455567777777777777777766 322211 23344445667777777777777


Q ss_pred             HHHH
Q 022131          136 LLGE  139 (302)
Q Consensus       136 ~~~~  139 (302)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7664

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.99  E-value=0.0044  Score=55.19  Aligned_cols=217  Identities=10%  Similarity=-0.011  Sum_probs=144.2

Q ss_pred             cchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 022131           15 IDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQ   94 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~   94 (302)
                      ...|...|-+..+... -=...|..|-..|..          ..+...|.+.|+...+.+ ..+..........|++..+
T Consensus       474 ~~~al~ali~alrld~-~~apaf~~LG~iYrd----------~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~  541 (1238)
T KOG1127|consen  474 SALALHALIRALRLDV-SLAPAFAFLGQIYRD----------SDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEEST  541 (1238)
T ss_pred             HHHHHHHHHHHHhccc-chhHHHHHHHHHHHH----------HHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhcccc
Confidence            5556665555554421 123467777777766          568888999999988875 3477888999999999999


Q ss_pred             chhHHHHHHHHHhcCC-CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHH
Q 022131           95 PQLSLDKLNFMKEKGI-CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYR  173 (302)
Q Consensus        95 ~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  173 (302)
                      ++.|..+.-..-+... ..-...|....-.|...++...|+.-|+...+..+ .|...|..+..+|...|++..|.++|.
T Consensus       542 we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~  620 (1238)
T KOG1127|consen  542 WEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFT  620 (1238)
T ss_pred             HHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhh
Confidence            9999988433332211 11122344455567788999999999999988755 588999999999999999999999999


Q ss_pred             HHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          174 QMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS------GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                      +.....  +.+...---..-.-+..|.+.++...+..+...      +...-..++-.+...+...|-..+|.+++++-
T Consensus       621 kAs~Lr--P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eks  697 (1238)
T KOG1127|consen  621 KASLLR--PLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKS  697 (1238)
T ss_pred             hhHhcC--cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            988774  223222222233445678899999888876642      11222344444444444445444555555443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.98  E-value=0.00046  Score=56.14  Aligned_cols=92  Identities=9%  Similarity=-0.053  Sum_probs=68.0

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      ...+...|+++.|+..|.++.+... .+...|..+..+|.+.|++++|+..++++.+... .+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCH
Confidence            4455667788888888888877653 3566777777788888888888888888877643 3566777777778888888


Q ss_pred             hHHHHHHHHHHhCC
Q 022131          166 NGAMKLYRQMKEDG  179 (302)
Q Consensus       166 ~~a~~~~~~~~~~~  179 (302)
                      ++|...|++..+..
T Consensus        87 ~eA~~~~~~al~l~  100 (356)
T PLN03088         87 QTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888877764

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.97  E-value=0.00033  Score=50.46  Aligned_cols=63  Identities=19%  Similarity=0.058  Sum_probs=29.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHccCCchHHHHHHHHHHhC
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP--SAETYNCFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .+..+...+...|++++|+..|++.......+  ...++..+...+...|++++|...++.....
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444444445555555555555554332111  1224444445555555555555555555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.97  E-value=0.0072  Score=50.24  Aligned_cols=185  Identities=11%  Similarity=0.073  Sum_probs=131.8

Q ss_pred             hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC---CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHH
Q 022131           96 QLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG---RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLY  172 (302)
Q Consensus        96 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  172 (302)
                      +++..+++.....-...+..+|..+...=-..-   ..+.....++++...-..--.-+|..+|+.-.+..-.+.|..+|
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF  389 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIF  389 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHH
Confidence            445555555544322223333433332211111   25566677777765533333457888898888988999999999


Q ss_pred             HHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 022131          173 RQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLL  252 (302)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  252 (302)
                      .++.+.+....++.+.++++..++ .++..-|.++|+--.++ ...++.--...+.-+.+.|+-..+..+|++....++.
T Consensus       390 ~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  390 KKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            999999874447788888888776 46788999999986554 3334455567888888999999999999999988666


Q ss_pred             Cch--hhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          253 PQK--VTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       253 p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      ||.  ..|..++.-=..-|++..+.++-+++.
T Consensus       468 ~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  468 ADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            654  789999999999999999998877654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.95  E-value=0.0015  Score=45.48  Aligned_cols=98  Identities=8%  Similarity=-0.070  Sum_probs=83.9

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      ....-.+...+...|++++|.++|+.+..-.  +-+..-|..|.-++-..|++++|.+.|....... +-|+..+-.+..
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D--p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~  111 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYD--AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            3444455566789999999999999999886  6777888899999999999999999999998875 357888899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC
Q 022131          229 GLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ++...|+.+.|.+.|+..+..
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999988764

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.89  E-value=0.00059  Score=49.16  Aligned_cols=98  Identities=9%  Similarity=-0.129  Sum_probs=70.5

Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP-NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTML  226 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  226 (302)
                      ....|..+...+...|++++|...+++.......++ ...++..+...+...|+.++|...++..... .+....++..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~-~~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER-NPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcCcHHHHHHH
Confidence            355667777788888999999999999876632111 2357888888999999999999999988875 23345556666


Q ss_pred             HHHHH-------HcCCHHHHHHHHHHH
Q 022131          227 IHGLC-------EKQKWKEACQYFVEM  246 (302)
Q Consensus       227 i~~~~-------~~g~~~~a~~~~~~~  246 (302)
                      ...+.       ..|+++.|...+++.
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            66666       777877666666554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.88  E-value=0.0021  Score=46.44  Aligned_cols=86  Identities=14%  Similarity=0.064  Sum_probs=45.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS--AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                      .+..+...+...|++++|...|++..+....+.  ...+..+...+...|++++|...+.+.....  +.+...+..+..
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~  114 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN--PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            445555555666666666666666654322211  2445555555566666666666666555543  334444444555


Q ss_pred             HHHhcCCHHH
Q 022131          194 MFMALNRMDM  203 (302)
Q Consensus       194 ~~~~~~~~~~  203 (302)
                      .+...|+...
T Consensus       115 ~~~~~g~~~~  124 (172)
T PRK02603        115 IYHKRGEKAE  124 (172)
T ss_pred             HHHHcCChHh
Confidence            5555554433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.86  E-value=0.002  Score=47.93  Aligned_cols=176  Identities=9%  Similarity=0.067  Sum_probs=99.7

Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCC--CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGI--CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      .....+...|++++|.+.|+.+.....  +......-.++.++.+.|++++|...+++..+.-+......+...+.+.+.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~   89 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHH
Confidence            344556678899999999999887632  223445667788888999999999999998876332222233333333322


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCC-------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPN-------MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ  234 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  234 (302)
                      ........       ..   ..|       ...+..++.-|-...-..+|...+..+.+.    =...--.+...|.+.|
T Consensus        90 ~~~~~~~~-------~~---~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~  155 (203)
T PF13525_consen   90 YKQIPGIL-------RS---DRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRG  155 (203)
T ss_dssp             HHHHHHHH--------T---T---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT
T ss_pred             HHhCccch-------hc---ccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcc
Confidence            11111110       00   111       123344444444555555665555554432    1111223567788999


Q ss_pred             CHHHHHHHHHHHHHCCCCCch----hhHHHHHHHHhhcchHHHHH
Q 022131          235 KWKEACQYFVEMIEKGLLPQK----VTFETLYRGLIQSDMLRTWR  275 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~  275 (302)
                      .+..|..-++.+++.  -|+.    .....++.++.+.|..+.+.
T Consensus       156 ~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  156 KYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             -HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             cHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            999999999999875  3433    45677888898888877443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.78  E-value=0.0045  Score=48.75  Aligned_cols=164  Identities=13%  Similarity=0.138  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHh----cCCCcC--HHHHHHHHHHHhcc-CCHHHHHHHHHHHHHC----CC-CCC
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKE----KGICPT--VATYSSVVKCLCSC-GRIEDAEELLGEMVRN----GV-CPS  148 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~----~~-~~~  148 (302)
                      .|.....+|.+. ++++|...+++..+    .| .|+  ...+..+...|... |++++|.+.|++..+.    +. ..-
T Consensus        77 ~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a  154 (282)
T PF14938_consen   77 AYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSA  154 (282)
T ss_dssp             HHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhH
Confidence            344444444333 55555555554432    22 112  23455666677777 8888888888876643    21 011


Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC----CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC--
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC----VPNMH-SYNILIGMFMALNRMDMVREIWNDVKGS--GLGPD--  219 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--  219 (302)
                      ...+..+...+.+.|++++|.++|+++......    ..+.. .+...+-++...|+.-.|...+++....  ++..+  
T Consensus       155 ~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E  234 (282)
T PF14938_consen  155 AECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSRE  234 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            345667777888999999999999988765321    11222 2334455667788999999999988754  23223  


Q ss_pred             HHHHHHHHHHHHH--cCCHHHHHHHHHHH
Q 022131          220 LDSYTMLIHGLCE--KQKWKEACQYFVEM  246 (302)
Q Consensus       220 ~~~~~~li~~~~~--~g~~~~a~~~~~~~  246 (302)
                      ......|+.++-.  ...+..++.-|+.+
T Consensus       235 ~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  235 YKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            3455667777643  34566666666655

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.78  E-value=0.0036  Score=41.88  Aligned_cols=15  Identities=33%  Similarity=0.401  Sum_probs=5.5

Q ss_pred             CCHHHHHHHHHHHHH
Q 022131          128 GRIEDAEELLGEMVR  142 (302)
Q Consensus       128 ~~~~~a~~~~~~~~~  142 (302)
                      |+.++|+.+|++...
T Consensus        15 G~~~~Ai~~Y~~Al~   29 (120)
T PF12688_consen   15 GREEEAIPLYRRALA   29 (120)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            333333333333333

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.76  E-value=0.0067  Score=43.29  Aligned_cols=159  Identities=13%  Similarity=0.116  Sum_probs=107.5

Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      ++.+..+.=|++...+-..+-.  ...|+...-..|..+....|+..+|...|++....-...|......+.++....++
T Consensus        62 ~~~a~~q~ldP~R~~Rea~~~~--~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~  139 (251)
T COG4700          62 LLMALQQKLDPERHLREATEEL--AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQE  139 (251)
T ss_pred             HHHHHHHhcChhHHHHHHHHHH--hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhcc
Confidence            3344444445554444333322  23567777777888888889999999998888876566677778888888888888


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      +..+...++.+.+.+.--.++.+-..+.+.+...|...+|+..|+...+.  -|+...-......+.+.|+.+++..-+.
T Consensus       140 ~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~  217 (251)
T COG4700         140 FAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYV  217 (251)
T ss_pred             HHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHH
Confidence            88888888888776421122334456677788888888888888888875  4555554445556667777666665554


Q ss_pred             HHH
Q 022131          245 EMI  247 (302)
Q Consensus       245 ~~~  247 (302)
                      .+.
T Consensus       218 ~v~  220 (251)
T COG4700         218 AVV  220 (251)
T ss_pred             HHH
Confidence            443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.76  E-value=0.00063  Score=51.99  Aligned_cols=102  Identities=18%  Similarity=0.133  Sum_probs=75.8

Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHH
Q 022131          123 CLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMD  202 (302)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (302)
                      -..+.+++.+|+..|.+.++... -|.+.|..-..+|++.|+++.|++-.+.....+  +....+|..|-.+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD--p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESALSID--PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC--hHHHHHHHHHHHHHHccCcHH
Confidence            35567888888888888887643 466777777788888888888887777777665  556778888888888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          203 MVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      +|.+.|++.++  +.|+-.+|-.=+..
T Consensus       167 ~A~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  167 EAIEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHHhhhc--cCCCcHHHHHHHHH
Confidence            88888888777  46766666544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.75  E-value=0.0037  Score=41.84  Aligned_cols=106  Identities=18%  Similarity=0.159  Sum_probs=73.5

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhCCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHH
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKEDGLCVPN--MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD----LDSYTMLI  227 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li  227 (302)
                      .+..++-..|+.++|..+|++....|. ...  ...+..+.+.+...|++++|..++++.....  |+    ......+.
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL-~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~A   82 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGL-SGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLA   82 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC-CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHH
Confidence            345567788999999999999998875 222  3456667788888999999999999887641  33    23333344


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHh
Q 022131          228 HGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLI  266 (302)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  266 (302)
                      .++...|+.++|++.+-....    ++...|..-|..|.
T Consensus        83 l~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   83 LALYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            566788999999998877654    33335555555544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.70  E-value=0.012  Score=44.52  Aligned_cols=130  Identities=10%  Similarity=0.001  Sum_probs=68.9

Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH-----HH
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF-----FK  157 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----~~  157 (302)
                      +.++..+.-.+.+.-.+..+.+..+...+.++.....+++.-.+.||.+.|...|++..+..-..+..+.+.+     ..
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            4444455555556666666666666554555555666666666666666666666655543222222222222     22


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      .|.-.+++..+...+.++...+  +.|....|.-.-+..-.|+..+|.+.++.|...
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D--~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMD--PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccC--CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3444555556666665555554  344444444444444455666666666666653

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.68  E-value=0.011  Score=45.38  Aligned_cols=170  Identities=11%  Similarity=0.013  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHH---HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc--c----
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTS---FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS--C----  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~----  127 (302)
                      .|++++|.+.|+.+...-..+ ...   .-.+..++.+.++++.|...+++..+....-....+...+.+.+.  .    
T Consensus        45 ~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~  123 (243)
T PRK10866         45 DGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSA  123 (243)
T ss_pred             CCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhh
Confidence            688999999999999864332 222   245678889999999999999999887433233334444444321  1    


Q ss_pred             -----------CC---HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          128 -----------GR---IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       128 -----------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                                 .|   ..+|+..|+.+++.  -|+..             -..+|...+..+...    .-.. -..+..
T Consensus       124 ~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~-------------ya~~A~~rl~~l~~~----la~~-e~~ia~  183 (243)
T PRK10866        124 LQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQ-------------YTTDATKRLVFLKDR----LAKY-ELSVAE  183 (243)
T ss_pred             hhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCCh-------------hHHHHHHHHHHHHHH----HHHH-HHHHHH
Confidence                       12   23566667776665  23332             123333333333221    0011 124566


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          194 MFMALNRMDMVREIWNDVKGS--GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      .|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+.
T Consensus       184 ~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        184 YYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            777888888888888887764  333345666677788888888888887776553

>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=97.66  E-value=0.00031  Score=41.92  Aligned_cols=51  Identities=10%  Similarity=0.139  Sum_probs=27.7

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          197 ALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ..|++++|.+.|+.+... .+-+...+..+..+|.+.|++++|.++++++..
T Consensus         3 ~~~~~~~A~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR-NPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH-TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445566666666655554 122455555555666666666666666665554

...

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

Probab=97.66  E-value=0.018  Score=45.36  Aligned_cols=223  Identities=11%  Similarity=0.051  Sum_probs=159.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHH-HHHHHHHHhccCCHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVAT-YSSVVKCLCSCGRIEDAEE  135 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~  135 (302)
                      .+++.+|+.-|....+.+ +.+-.++-.-...|...|+...|+.=+...++.  +||-.. -..-...+.+.|.+++|..
T Consensus        51 ~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~~  127 (504)
T KOG0624|consen   51 RGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAEA  127 (504)
T ss_pred             hhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHHH
Confidence            778888888888877652 213334444456788889999999989988886  566332 2233456778999999999


Q ss_pred             HHHHHHHCCCCCC------------hh--hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCH
Q 022131          136 LLGEMVRNGVCPS------------AE--TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRM  201 (302)
Q Consensus       136 ~~~~~~~~~~~~~------------~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (302)
                      =|+.+++....-.            ..  .....+..+...|+...++.....+.+..  +-|...+..-..+|...|++
T Consensus       128 DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~--~Wda~l~~~Rakc~i~~~e~  205 (504)
T KOG0624|consen  128 DFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ--PWDASLRQARAKCYIAEGEP  205 (504)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC--cchhHHHHHHHHHHHhcCcH
Confidence            9999998743211            11  12234555678899999999999999985  67888888899999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH-------HH------HHHhhc
Q 022131          202 DMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFET-------LY------RGLIQS  268 (302)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~-------l~------~~~~~~  268 (302)
                      ..|+.=++...+.. ..+..++--+-..+...|+.+.++...++..+  +.||....-.       +.      ....+.
T Consensus       206 k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~  282 (504)
T KOG0624|consen  206 KKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEE  282 (504)
T ss_pred             HHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            99998888877763 34667777788888899999999999999877  4566532211       11      223345


Q ss_pred             chHHHHHHHHHhccccCCC
Q 022131          269 DMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       269 g~~~~a~~~~~~~~~~~~~  287 (302)
                      ++|.++..--+...+....
T Consensus       283 ~~~t~cle~ge~vlk~ep~  301 (504)
T KOG0624|consen  283 KHWTECLEAGEKVLKNEPE  301 (504)
T ss_pred             hhHHHHHHHHHHHHhcCCc
Confidence            6666777666666665544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.011  Score=45.64  Aligned_cols=113  Identities=15%  Similarity=0.137  Sum_probs=84.3

Q ss_pred             CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHH
Q 022131          146 CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN---RMDMVREIWNDVKGSGLGPDLDS  222 (302)
Q Consensus       146 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~  222 (302)
                      +-|...|..|..+|...|+.+.|..-|.+..+..  +++...+..+..++....   ...++..+|+++... -+-|+.+
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--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL-DPANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc-CCccHHH
Confidence            3578889999999999999999999998888875  567777777766655432   355788888888876 2346777


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHH
Q 022131          223 YTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYR  263 (302)
Q Consensus       223 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  263 (302)
                      ...|...+...|++.+|...|+.|.+.  -|....+..++.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            777888888899999999999998875  344444555554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.64  E-value=0.005  Score=47.27  Aligned_cols=103  Identities=17%  Similarity=0.146  Sum_probs=84.3

Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  166 (302)
                      .-..+.+++++|+..|.+.++... -|.+-|..-..+|.+.|.++.|++=.+..+..+. ....+|..|-.+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp-~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP-HYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh-HHHHHHHHHHHHHHccCcHH
Confidence            346678899999999999999853 3777888899999999999999998888887643 35678999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGM  194 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (302)
                      +|.+.|++..+.   .|+-.+|-.=+..
T Consensus       167 ~A~~aykKaLel---dP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  167 EAIEAYKKALEL---DPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHHhhhcc---CCCcHHHHHHHHH
Confidence            999999999887   4665566544443

>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=97.63  E-value=0.0003  Score=41.93  Aligned_cols=50  Identities=14%  Similarity=0.207  Sum_probs=24.2

Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .|++++|.++|+++....  +.+...+..+..+|.+.|++++|.++++.+..
T Consensus         4 ~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444555555555554443  33444444455555555555555555555444

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.63  E-value=0.0006  Score=40.22  Aligned_cols=56  Identities=13%  Similarity=0.216  Sum_probs=32.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          192 IGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ...+...|++++|...|+.+.+.. +-+...+..+..++...|++++|...|+++.+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345556666666666666666652 22455556666666666666666666666654

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.58  E-value=0.0038  Score=43.77  Aligned_cols=72  Identities=14%  Similarity=0.182  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCchhhHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE-----KGLLPQKVTFE  259 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~  259 (302)
                      ....++..+...|+++.|..+.+.+... -+.+...|..+|.+|...|+...|.+.|+++.+     .|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALAL-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            4455666667777777777777777765 344666777777777777777777777776643     37777765543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.58  E-value=0.00052  Score=41.04  Aligned_cols=64  Identities=11%  Similarity=0.132  Sum_probs=42.3

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC-CHHHHHHHHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG-RIEDAEELLGEMVR  142 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~  142 (302)
                      ++.+|..+...+...|++++|+..|++..+... .+...|..+..++.+.| ++++|+..+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            355666666777777777777777777766642 25556666667777776 57777777766654

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.56  E-value=0.015  Score=43.94  Aligned_cols=139  Identities=11%  Similarity=0.067  Sum_probs=104.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH----
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI----  192 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~----  192 (302)
                      -+.+++...-.|.+.-...++.++++...+.++.....+++.-.+.|+.+.|...|+...+... +.|..+.+.++    
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHhhh
Confidence            3556666777788888999999999987777888999999999999999999999998876654 55555555544    


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHH
Q 022131          193 -GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFE  259 (302)
Q Consensus       193 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  259 (302)
                       ..|.-.+++..|...+.++.... +.|+..-|.=.-+..-.|+..+|++.++.|++.  .|...+-+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence             34555678888888888887752 335555555555556678999999999999874  45554444

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.53  E-value=0.016  Score=49.49  Aligned_cols=248  Identities=12%  Similarity=0.143  Sum_probs=133.1

Q ss_pred             HHHHHhcCCcchHHHHHH---------HHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCC
Q 022131            6 IYGWCKINRIDMAERFLG---------EMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIE   76 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~---------~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~   76 (302)
                      +..|...|.+++|.++--         .+...  ..+.-.++..-.+|.+..        ...+-+...-++++.++|-.
T Consensus       563 m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVR--------dl~~L~li~EL~~~k~rge~  632 (1081)
T KOG1538|consen  563 MYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVR--------DLRYLELISELEERKKRGET  632 (1081)
T ss_pred             chhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHh--------ccHHHHHHHHHHHHHhcCCC
Confidence            445667777777765421         11111  123333444455555522        22334455556788888877


Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc-CHHHHH-----HHHHHHhccCCHHHHHHHHHHHHHCCCCCChh
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP-TVATYS-----SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAE  150 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~-----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  150 (302)
                      |+...   +...++-.|.+.+|-++|.+-   |... -...|+     -..+-+...|..++-..+.++-.+-  ..+..
T Consensus       633 P~~iL---lA~~~Ay~gKF~EAAklFk~~---G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~k  704 (1081)
T KOG1538|consen  633 PNDLL---LADVFAYQGKFHEAAKLFKRS---GHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--ARNIK  704 (1081)
T ss_pred             chHHH---HHHHHHhhhhHHHHHHHHHHc---CchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--hhhcC
Confidence            87754   334455566777777666543   2110 001111     1122333444444333333322111  00000


Q ss_pred             hHHHHHHHHHccCCchHHHHH-------------HHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022131          151 TYNCFFKEYRGRKDANGAMKL-------------YRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG  217 (302)
Q Consensus       151 ~~~~l~~~~~~~~~~~~a~~~-------------~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (302)
                      -=.+....+...|+.++|..+             -+++.     ..+..+...+...+.+...+..|.++|.+|-+.   
T Consensus       705 ePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld-----~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---  776 (1081)
T KOG1538|consen  705 EPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLD-----KAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---  776 (1081)
T ss_pred             CcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcc-----hhhhhHHHHHHHHHhhccccchHHHHHHHhccH---
Confidence            001223334455555554443             22222     234455666666666777788888888887643   


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch-----------hhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          218 PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK-----------VTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       218 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-----------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                            ..++..+...+++++|..+.++.-+  +.||.           .-|.-.-.+|.++|+..+|.++++++....+
T Consensus       777 ------ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  777 ------KSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             ------HHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence                  3467778888999999998887654  34443           2344455788899999999999998876554


Q ss_pred             C
Q 022131          287 T  287 (302)
Q Consensus       287 ~  287 (302)
                      .
T Consensus       849 ~  849 (1081)
T KOG1538|consen  849 A  849 (1081)
T ss_pred             h
Confidence            3

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.53  E-value=0.0011  Score=46.60  Aligned_cols=74  Identities=12%  Similarity=0.207  Sum_probs=50.2

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG-----SGLGPDLDSY  223 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  223 (302)
                      ..+...++..+...|+++++..+...+....  +.+...+..+|.++...|+...|.+.|+.+..     .|+.|+..+-
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d--P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALD--PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            3455666667777888888888888888776  67778888888888888888888888877643     4777777654


Q ss_pred             H
Q 022131          224 T  224 (302)
Q Consensus       224 ~  224 (302)
                      .
T Consensus       140 ~  140 (146)
T PF03704_consen  140 A  140 (146)
T ss_dssp             H
T ss_pred             H
Confidence            3

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=97.50  E-value=0.019  Score=44.35  Aligned_cols=114  Identities=15%  Similarity=0.070  Sum_probs=90.6

Q ss_pred             CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC---CchHHHHHHHHHHhCCCCCCCHHH
Q 022131          111 CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK---DANGAMKLYRQMKEDGLCVPNMHS  187 (302)
Q Consensus       111 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  187 (302)
                      +-|...|-.|...|...|+.+.|..-|.+..+... +++..+..+..++....   ...++..+|+++....  +-|+.+
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 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG-DNPEILLGLAEALYYQAGQQMTAKARALLRQALALD--PANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC--CccHHH
Confidence            44888999999999999999999999999988633 56777777776654332   4468999999999987  678888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          188 YNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      ...|...+...|++.+|...|+.|.+..  |....+..+|..
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie~  269 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHHH
Confidence            8888899999999999999999999973  333344444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.50  E-value=0.034  Score=44.43  Aligned_cols=110  Identities=15%  Similarity=0.126  Sum_probs=81.1

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      ..+.+..+.-+...|+...|.++-.+..     .|+..-|...+.+++..++|++-.++-..      +-++..|..++.
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~  245 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK-----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVE  245 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC-----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHH
Confidence            3455666777788888888887766553     68899999999999999999988876432      224578999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHH
Q 022131          229 GLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKK  279 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  279 (302)
                      +|...|+..+|..+..++      +    +..-+..|.+.|++.+|.+..-
T Consensus       246 ~~~~~~~~~eA~~yI~k~------~----~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPKI------P----DEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHHCCCHHHHHHHHHhC------C----hHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999999888772      1    1334555666677766665543

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

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.48  E-value=0.00075  Score=39.80  Aligned_cols=54  Identities=13%  Similarity=0.162  Sum_probs=25.7

Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .+...|++++|...|+++.+..  +-+...+..+..++...|++++|...|+++.+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444455555555555555443  33444444444555555555555555554443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.47  E-value=0.04  Score=44.63  Aligned_cols=168  Identities=15%  Similarity=0.107  Sum_probs=110.1

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcC---CCcCHHHHHHHHHHHhc---cCCHHHHHHHHHHHHHCCCCCChhhH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG---ICPTVATYSSVVKCLCS---CGRIEDAEELLGEMVRNGVCPSAETY  152 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~  152 (302)
                      ..+...++-+|....+++..+++.+.+....   +.-+...-....-++.+   .|+.++|.+++..+......+++.++
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            3444556667999999999999999998762   22233333445556666   89999999999997666667888999


Q ss_pred             HHHHHHHHc---------cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCH----HHHHHHH---H-HHHhCC
Q 022131          153 NCFFKEYRG---------RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRM----DMVREIW---N-DVKGSG  215 (302)
Q Consensus       153 ~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~---~-~~~~~~  215 (302)
                      ..+.+.|-.         ....++|...|.+.-+.   .||..+=..++..+...|.-    .+..++-   . .+.+.|
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~---~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI---EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC---CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            888887732         22356788888877665   35544333333333333331    1222222   1 122233


Q ss_pred             C---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          216 L---GPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       216 ~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      .   ..+-..+..++.+++-.|+.++|.+..++|.+.
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            2   234455678889999999999999999999865

>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=97.46  E-value=0.0034  Score=42.43  Aligned_cols=52  Identities=13%  Similarity=0.014  Sum_probs=40.0

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCchhhHHHHHHHHh
Q 022131          215 GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK-GLLPQKVTFETLYRGLI  266 (302)
Q Consensus       215 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~  266 (302)
                      ...|+..+..+++.+|+.+|++..|+++.+...+. +++.+..+|..|++=+.
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            35678888888888888888888888888887654 67777788888876333

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.46  E-value=0.026  Score=42.09  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=11.1

Q ss_pred             HHHHHccCCchHHHHHHHHHHhC
Q 022131          156 FKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .+.|.+.|.+..|..-++.+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH
Confidence            34445555555555555555544

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.44  E-value=0.0011  Score=39.56  Aligned_cols=61  Identities=11%  Similarity=0.155  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHH
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ-KWKEACQYFVEMI  247 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~  247 (302)
                      ..|..+...+...|++++|...|++..+.. +-+...|..+..++...| ++++|++.+++.+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344444444444444444444444444431 223344444444444444 3444444444443

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.42  E-value=0.022  Score=40.73  Aligned_cols=135  Identities=10%  Similarity=0.064  Sum_probs=106.2

Q ss_pred             CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CChhhHH
Q 022131           75 IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PSAETYN  153 (302)
Q Consensus        75 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  153 (302)
                      ..|+...--.|..+..+.|+..+|...|++...--+.-|......+.++....+++..|...++.+.+.... -++.+..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            467777778899999999999999999999987555667888888999999999999999999999876321 1344566


Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      .+.+.+...|.+..|..-|+.....   .|+...-......+.+.|+.+++..-+..+.
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~---ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY---YPGPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh---CCCHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            7788999999999999999999887   5666655555556677787776665444443

>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=97.42  E-value=0.0044  Score=41.92  Aligned_cols=82  Identities=15%  Similarity=0.095  Sum_probs=47.7

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhc---------------CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK---------------GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      |..++..++.++++.|+.+....+++..-.-               ...|+..+..+++.+|+..|++..|.++++...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4556777778888888877777777655221               1234555555555555555555555555555543


Q ss_pred             C-CCCCChhhHHHHHHHH
Q 022131          143 N-GVCPSAETYNCFFKEY  159 (302)
Q Consensus       143 ~-~~~~~~~~~~~l~~~~  159 (302)
                      . +++.+..+|..|++-.
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HcCCCCCHHHHHHHHHHH
Confidence            3 4444455555555443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.36  E-value=0.0083  Score=46.43  Aligned_cols=101  Identities=7%  Similarity=0.032  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC-CCCCHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP--SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL-CVPNMHSYNI  190 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~  190 (302)
                      ...|...+..+.+.|++++|...|+.+.+..+..  ....+..+...|...|++++|...|..+.+... .+.....+-.
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            3345555555566678888888888877753211  134666777778888888888888888876521 0122444555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          191 LIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      +...+...|+.+.|..+++.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            566677788888888888887764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.31  E-value=0.012  Score=45.65  Aligned_cols=103  Identities=13%  Similarity=0.093  Sum_probs=79.7

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVKGSG--LGPDLDS  222 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~  222 (302)
                      ...|...+....+.|++++|...|+.+.+..   |+    ...+..+..+|...|++++|...|+.+.+.-  -+.....
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y---P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY---PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC---cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            4456665655567899999999999999874   44    3577889999999999999999999998641  1123455


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchh
Q 022131          223 YTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKV  256 (302)
Q Consensus       223 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  256 (302)
                      +-.+..++...|+.++|..+|+.+++.  .|+..
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            566677788999999999999999874  46554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.30  E-value=0.0074  Score=48.56  Aligned_cols=265  Identities=15%  Similarity=0.074  Sum_probs=156.2

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcccHH----HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHH--Hhc--CCC-CC
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEPNVV----TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEM--RVR--GIE-PD   78 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~--~~~--~~~-~~   78 (302)
                      -+|+.|+....+.+|+...+.|.. |..    .|..|-.+|.-          .+++++|++...-=  ..+  |-+ -.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfy----------L~DY~kAl~yH~hDltlar~lgdklGE   94 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFY----------LKDYEKALKYHTHDLTLARLLGDKLGE   94 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhh----------HhhHHHHHhhhhhhHHHHHHhcchhcc
Confidence            478999999999999999988643 333    34444445555          78888888764321  111  100 01


Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHH----HHHhcCCC-cCHHHHHHHHHHHhccCC--------------------HHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLN----FMKEKGIC-PTVATYSSVVKCLCSCGR--------------------IEDA  133 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~----~~~~~~~~-~~~~~~~~ll~~~~~~~~--------------------~~~a  133 (302)
                      ......|...+--.|.+++|.-.-.    -..+.|-. .....+-.+.+.|...|+                    ++.|
T Consensus        95 AKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~A  174 (639)
T KOG1130|consen   95 AKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENA  174 (639)
T ss_pred             ccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHH
Confidence            2233334444555666666654322    22222211 123344556666654432                    2334


Q ss_pred             HHHHHHHHH----CCC-CCChhhHHHHHHHHHccCCchHHHHHHHHHH----hCCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022131          134 EELLGEMVR----NGV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMK----EDGLCVPNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       134 ~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      .++|.+-.+    .|- -.....|..+-..|.-.|+++.++...+.-.    +-|-.......+..+..++.-.|+++.|
T Consensus       175 v~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A  254 (639)
T KOG1130|consen  175 VKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELA  254 (639)
T ss_pred             HHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhH
Confidence            444443221    111 0123456666666777888888877655432    2222123345677888899999999999


Q ss_pred             HHHHHHHHh----CCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCCCchhhHHHHHHHHhhcchHHHH
Q 022131          205 REIWNDVKG----SGL-GPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK-----GLLPQKVTFETLYRGLIQSDMLRTW  274 (302)
Q Consensus       205 ~~~~~~~~~----~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~p~~~~~~~l~~~~~~~g~~~~a  274 (302)
                      .+.++....    .|- .....+.-+|...|.-..++++|+.++.+-..-     ...-....+.+|..++...|..++|
T Consensus       255 ~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kA  334 (639)
T KOG1130|consen  255 IEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKA  334 (639)
T ss_pred             HHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHH
Confidence            998876443    221 223455666777887788899999988764321     1233456788899999999999999


Q ss_pred             HHHHHhccc
Q 022131          275 RRLKKKLDE  283 (302)
Q Consensus       275 ~~~~~~~~~  283 (302)
                      ..+.+.-.+
T Consensus       335 l~fae~hl~  343 (639)
T KOG1130|consen  335 LYFAELHLR  343 (639)
T ss_pred             HHHHHHHHH
Confidence            888765444

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.22  E-value=0.042  Score=47.47  Aligned_cols=157  Identities=11%  Similarity=0.086  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc-CCCcCHHHHHHHHHHHhccCCHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK-GICPTVATYSSVVKCLCSCGRIEDAEE  135 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~  135 (302)
                      -|++++|+++|-+|..++         ..+..+.+.|++-.+.++++.--.. .-..-...|+.+...++....+++|.+
T Consensus       747 ~g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             hcchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666655442         2344555666665555444331000 001113356666666666666666666


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022131          136 LLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG  215 (302)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (302)
                      .|..-...         ...+.++.+..++++...+-+.+      +.+....-.+.+++.+.|.-++|.+.+-+...  
T Consensus       818 yY~~~~~~---------e~~~ecly~le~f~~LE~la~~L------pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~--  880 (1189)
T KOG2041|consen  818 YYSYCGDT---------ENQIECLYRLELFGELEVLARTL------PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL--  880 (1189)
T ss_pred             HHHhccch---------HhHHHHHHHHHhhhhHHHHHHhc------CcccchHHHHHHHHHhhchHHHHHHHHHhccC--
Confidence            66543321         12344445555555544444443      34445566777888888888888776654322  


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          216 LGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       216 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                        |     ...+..|...+++.+|.++.++.
T Consensus       881 --p-----kaAv~tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  881 --P-----KAAVHTCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             --c-----HHHHHHHHHHHHHHHHHHHHHhc
Confidence              2     23456677777787777776654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.16  E-value=0.0057  Score=36.92  Aligned_cols=54  Identities=11%  Similarity=0.168  Sum_probs=30.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          194 MFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .|.+.++++.|.++++.+...+ +.+...+.....++...|++++|.+.++...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            4555566666666666665542 23445555555556666666666666666654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.11  E-value=0.0027  Score=38.98  Aligned_cols=59  Identities=19%  Similarity=0.215  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC----C-CCCc-hhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIEK----G-LLPQ-KVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      +++.+...|...|++++|+..|++..+.    | -.|+ ..++..+..++...|++++|.+++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4455555555555555555555554422    1 0111 23444455555555555555555554

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.08  E-value=0.054  Score=38.15  Aligned_cols=86  Identities=12%  Similarity=0.053  Sum_probs=47.0

Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022131          125 CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      ...|++++|..+|+-+...++ -+..-|..|..++-..+++++|...|......+  +.|+..+-....++...|+.+.|
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~--~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL--KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--cCCCCccchHHHHHHHhCCHHHH
Confidence            345666666666666555433 344445555555555666666666665554443  23333344455555666666666


Q ss_pred             HHHHHHHHh
Q 022131          205 REIWNDVKG  213 (302)
Q Consensus       205 ~~~~~~~~~  213 (302)
                      ...|+....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666665554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.05  E-value=0.0069  Score=36.54  Aligned_cols=53  Identities=13%  Similarity=0.094  Sum_probs=25.1

Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      |.+.+++++|.++++.+...+  +.+...+.....++...|++++|.+.++...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            444444444544444444443  33444444444444445555555555544444

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.03  E-value=0.0028  Score=38.94  Aligned_cols=63  Identities=19%  Similarity=0.280  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhc----CC-CcC-HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GI-CPT-VATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      .+++.+...|...|++++|+..|++..+.    |. .|+ ..++..+..++...|++++|++.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45666777777777777777777766533    11 111 44566677777777777777777776543

...

>PRK15331 chaperone protein SicA; Provisional

Probab=96.96  E-value=0.071  Score=37.56  Aligned_cols=91  Identities=12%  Similarity=-0.031  Sum_probs=75.2

Q ss_pred             HHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          156 FKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                      .--+...|++++|..+|+-+...+  +-+..-|..|..++-..+++++|...|......+. -|+..+-....++...|+
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~~  120 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            334568999999999999999876  56677778888888899999999999998766542 455666778899999999


Q ss_pred             HHHHHHHHHHHHHC
Q 022131          236 WKEACQYFVEMIEK  249 (302)
Q Consensus       236 ~~~a~~~~~~~~~~  249 (302)
                      .+.|...|...+++
T Consensus       121 ~~~A~~~f~~a~~~  134 (165)
T PRK15331        121 AAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999998773

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.94  E-value=0.024  Score=46.67  Aligned_cols=66  Identities=11%  Similarity=0.036  Sum_probs=41.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL----DSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      +.+...++.+..+|...|++++|...|++..+.  .|+.    .+|..+..+|...|+.++|+..+++.++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344556666666666666666666666666653  3442    23666666666666666666666666653

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.86  E-value=0.027  Score=43.08  Aligned_cols=106  Identities=13%  Similarity=0.188  Sum_probs=77.3

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----------------C
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH----------------Q   94 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------------~   94 (302)
                      +-|-.+|...+..+....--.     .+.++-....++.|.+.|+..|..+|+.||..+-+..                +
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~-----R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~Q  138 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRG-----RTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQ  138 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcc-----cchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchh
Confidence            346667777776665521100     4567777788899999999999999999998765532                2


Q ss_pred             chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCH-HHHHHHHHHHH
Q 022131           95 PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRI-EDAEELLGEMV  141 (302)
Q Consensus        95 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~  141 (302)
                      -+-+++++++|..+|+.||..+-..+++++.+.+-. .+..++.-.|.
T Consensus       139 Q~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  139 QNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            245889999999999999999999999999987753 34444444443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.82  E-value=0.26  Score=41.98  Aligned_cols=160  Identities=16%  Similarity=0.152  Sum_probs=105.7

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCCh------hhHHHHHHHHHc----cCCchHHHHHHHHHHhCCCCCCCHHHHH
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCPSA------ETYNCFFKEYRG----RKDANGAMKLYRQMKEDGLCVPNMHSYN  189 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  189 (302)
                      ++....=.||-+.+++.+.+..+.+---.+      -.|..++..++.    ..+.+.+.+++..+.+.   .|+...|.
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lfl  270 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALFL  270 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHHH
Confidence            344455678999999999887764221122      233334433333    45667899999999988   57766665


Q ss_pred             HH-HHHHHhcCCHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHH
Q 022131          190 IL-IGMFMALNRMDMVREIWNDVKGSGL---GPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGL  265 (302)
Q Consensus       190 ~l-~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  265 (302)
                      .. .+.+...|++++|.+.|+.......   +.....+--+..++.-.+++++|.+.|..+.+.. ..+..+|..+..+|
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            44 4566678999999999997664211   1123344456667888999999999999998753 33455555554443


Q ss_pred             h-hcchH-------HHHHHHHHhccc
Q 022131          266 I-QSDML-------RTWRRLKKKLDE  283 (302)
Q Consensus       266 ~-~~g~~-------~~a~~~~~~~~~  283 (302)
                      . ..|+.       ++|.+++++...
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHH
Confidence            3 56766       788888877554

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.77  E-value=0.19  Score=39.73  Aligned_cols=138  Identities=14%  Similarity=0.178  Sum_probs=88.5

Q ss_pred             cchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHHh
Q 022131           15 IDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG---IEPDVTSFSIVLHVYSR   91 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~   91 (302)
                      +++...+++.|.+.|+.-+..+|-+........    ..........++..+|+.|++.-   -.++...+..++..  .
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~----~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~  151 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEE----EKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--T  151 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhc----ccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--c
Confidence            566788899999999988887766644333331    11111577889999999999863   12455566666544  3


Q ss_pred             cCCc----hhHHHHHHHHHhcCCCcCHH--HHHHHHHHHhccCC--HHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 022131           92 AHQP----QLSLDKLNFMKEKGICPTVA--TYSSVVKCLCSCGR--IEDAEELLGEMVRNGVCPSAETYNCFFKE  158 (302)
Q Consensus        92 ~~~~----~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  158 (302)
                      ..++    +.+..+|+.+.+.|+..+..  ....++........  ...+.++++.+.+.|+++....|..+.-.
T Consensus       152 ~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  152 SEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             cccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence            3333    55677788888877665433  33344433333222  34788889999999988887777655433

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.76  E-value=0.084  Score=35.54  Aligned_cols=65  Identities=14%  Similarity=0.163  Sum_probs=37.1

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                      ......+......|..+...+++..+.+.+  .+++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn~--~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKNE--EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhcc--CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            344455556666666677777777666544  56666666677777777777777777776666654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.75  E-value=0.34  Score=42.27  Aligned_cols=42  Identities=17%  Similarity=0.142  Sum_probs=26.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC-CCCCchhhHHHHHHHHh
Q 022131          225 MLIHGLCEKQKWKEACQYFVEMIEK-GLLPQKVTFETLYRGLI  266 (302)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~  266 (302)
                      .|..--...|..+.|++.--.+.+. .+-|....|+.+.-+.+
T Consensus      1026 ilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaac 1068 (1189)
T KOG2041|consen 1026 ILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAAC 1068 (1189)
T ss_pred             HHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHh
Confidence            3444455678888888876666543 46666777776654433

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.73  E-value=0.21  Score=43.09  Aligned_cols=219  Identities=13%  Similarity=0.131  Sum_probs=121.4

Q ss_pred             HHHHHHHHhcCCcc--hHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCC----
Q 022131            3 TSLIYGWCKINRID--MAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIE----   76 (302)
Q Consensus         3 ~~li~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~----   76 (302)
                      +..=.+|.+..+..  +.+.-+++++++|-.|+....   ...++-          .|.+.+|-++|.+--..+-.    
T Consensus       602 ~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay----------~gKF~EAAklFk~~G~enRAlEmy  668 (1081)
T KOG1538|consen  602 ETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAY----------QGKFHEAAKLFKRSGHENRALEMY  668 (1081)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHh----------hhhHHHHHHHHHHcCchhhHHHHH
Confidence            33445666655543  333345566777777776543   333444          77888888888764332100    


Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHH------HHHHCCCC---C
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLG------EMVRNGVC---P  147 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~------~~~~~~~~---~  147 (302)
                      .|...|. ...-+...|..++-..+.++-.+  ...+..--.+....+...|+.++|..+.-      -+.+.+.+   .
T Consensus       669 TDlRMFD-~aQE~~~~g~~~eKKmL~RKRA~--WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~  745 (1081)
T KOG1538|consen  669 TDLRMFD-YAQEFLGSGDPKEKKMLIRKRAD--WARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKA  745 (1081)
T ss_pred             HHHHHHH-HHHHHhhcCChHHHHHHHHHHHH--HhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchh
Confidence            0111111 23334445554444433332211  00111111233445556677777765432      12222222   2


Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH------
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLD------  221 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------  221 (302)
                      +..+...+...+.+...+..|.++|..|-..          ..+++.....++|++|..+-+...+.  .||+.      
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~----------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqw  813 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL----------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQW  813 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH----------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHH
Confidence            3344555555556677778888888877543          35778888999999999988877663  34432      


Q ss_pred             -----HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          222 -----SYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       222 -----~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                           -|.-.-.+|.++|+-.+|.++++++-..
T Consensus       814 LAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  814 LAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence                 2333446788889999999999887654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.25  Score=40.17  Aligned_cols=83  Identities=7%  Similarity=-0.079  Sum_probs=41.4

Q ss_pred             hcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH---HHHHHhhcch
Q 022131          197 ALNRMDMVREIWNDVKGS---GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFET---LYRGLIQSDM  270 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~---l~~~~~~~g~  270 (302)
                      +.|++..|.+.+.+.+..   +.+|+...|........+.|+.++|+.-..+..+    .|+.-...   -.+++...++
T Consensus       261 k~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~----iD~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  261 KNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK----IDSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             hccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh----cCHHHHHHHHHHHHHHHHHHH
Confidence            455666666666665542   2334455555555555566666666665555533    22221111   1233444555


Q ss_pred             HHHHHHHHHhccc
Q 022131          271 LRTWRRLKKKLDE  283 (302)
Q Consensus       271 ~~~a~~~~~~~~~  283 (302)
                      |++|.+-+++..+
T Consensus       337 ~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHh
Confidence            6665555555433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.67  E-value=0.19  Score=38.22  Aligned_cols=82  Identities=7%  Similarity=0.041  Sum_probs=56.6

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC--CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG--ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                      -...|+.-+. -.+.|++++|.+.|+.+....  -+-...+.-.++.++.+.+++++|+...++....-.......|...
T Consensus        34 ~~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Y  112 (254)
T COG4105          34 ASELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYY  112 (254)
T ss_pred             HHHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHH
Confidence            3444554444 447899999999999998663  2234556666777888999999999999998876443344456666


Q ss_pred             HHHHH
Q 022131          156 FKEYR  160 (302)
Q Consensus       156 ~~~~~  160 (302)
                      |.+++
T Consensus       113 lkgLs  117 (254)
T COG4105         113 LKGLS  117 (254)
T ss_pred             HHHHH
Confidence            66655

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.60  E-value=0.13  Score=42.62  Aligned_cols=66  Identities=12%  Similarity=0.014  Sum_probs=57.4

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCH---HHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTV---ATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      .+...++.+..+|.+.|++++|+..|++..+.... +.   .+|..+..+|...|+.++|+..+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd-~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPN-PDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35678999999999999999999999999887533 22   45899999999999999999999999885

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.55  E-value=0.072  Score=40.91  Aligned_cols=32  Identities=19%  Similarity=0.196  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHCCCCCchhhHHHHHHHHhhcc
Q 022131          238 EACQYFVEMIEKGLLPQKVTFETLYRGLIQSD  269 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  269 (302)
                      =++.++++|...|+.||..+-..|++++.+.+
T Consensus       141 C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  141 CAIKVLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            35666677776777777776666776666655

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.48  E-value=0.3  Score=38.44  Aligned_cols=130  Identities=16%  Similarity=0.118  Sum_probs=67.1

Q ss_pred             HhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHH-HHHHHHHHHHHHHhc--------CCCCCH-
Q 022131           10 CKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEK-TIRNAEKVFDEMRVR--------GIEPDV-   79 (302)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~-   79 (302)
                      .+.|+++.|..++.+....-...++.....+-..|...|.-.-.   .+ +++.|..++++..+.        ...|+. 
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~---~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~   80 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLS---KKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGS   80 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHH---cCCChHHHHHHHHHHHHHHHhhhhccccCCcHH
Confidence            57899999999999987653123333333444333332211000   12 333333333332221        122222 


Q ss_pred             ----HHHHHHHHHHHhcCCch---hHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           80 ----TSFSIVLHVYSRAHQPQ---LSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        80 ----~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                          .++..++.++...+..+   +|..+++.+...... .+.++..-+..+.+.++.+++.+++.+|...
T Consensus        81 elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   81 ELRLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence                35566666676666544   344455555443221 2444545566666677777777777777765

It is also involved in sporulation [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.46  E-value=0.47  Score=40.44  Aligned_cols=161  Identities=19%  Similarity=0.140  Sum_probs=107.5

Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcC-CCcC-----HHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCChhhHH
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKG-ICPT-----VATYSSVVKCLCS----CGRIEDAEELLGEMVRNGVCPSAETYN  153 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~-----~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (302)
                      .++....=.||-+..++.+.+..+.+ +...     .-+|..++..++.    ..+.+.|.++++.+.+.  -|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            34445555788888888888776543 2211     1234444444433    45778899999999986  46766665


Q ss_pred             HH-HHHHHccCCchHHHHHHHHHHhCC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022131          154 CF-FKEYRGRKDANGAMKLYRQMKEDG--LCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGL  230 (302)
Q Consensus       154 ~l-~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  230 (302)
                      .. .+.+...|+.++|.+.|+......  ........+--+.-.+....+|++|.+.|..+.+.+ .-+...|.-+..+|
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            44 356778999999999999765421  112233445556677888999999999999999852 33555555554444


Q ss_pred             -HHcCCH-------HHHHHHHHHHH
Q 022131          231 -CEKQKW-------KEACQYFVEMI  247 (302)
Q Consensus       231 -~~~g~~-------~~a~~~~~~~~  247 (302)
                       ...|+.       ++|.++|.+..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence             556777       88888888764

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.32  Score=37.81  Aligned_cols=143  Identities=13%  Similarity=0.083  Sum_probs=80.6

Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchH
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG  167 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  167 (302)
                      .....|+...|...|......... +...-..+..+|...|+.+.|..++..+....-.........-+..+.+.....+
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            345566777777777766665322 3445556667777777777777777766543221122222233444555555555


Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCC
Q 022131          168 AMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--GLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~  235 (302)
                      ..++-+++-..   +.|...-..+...+...|+.+.|.+.+-.+.++  |. -|...-..+++.+.--|.
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---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGF-EDGEARKTLLELFEAFGP  287 (304)
T ss_pred             HHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-cCcHHHHHHHHHHHhcCC
Confidence            55555555544   446666666677777777777776665555443  22 244555566666655553

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.38  E-value=0.22  Score=40.30  Aligned_cols=124  Identities=14%  Similarity=0.092  Sum_probs=70.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHC-----CCC---------CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCH
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRN-----GVC---------PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNM  185 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~-----~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  185 (302)
                      -.+.|.+.|++..|..-|++....     +..         .-..++..+..+|.+.+++..|+..-....+.+  ++|+
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~--~~N~  291 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD--PNNV  291 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC--CCch
Confidence            344567777777777777765432     110         112345555566666677777777666666665  5666


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCH-HHHHHHHHHHH
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLD-SYTMLIHGLCEKQKW-KEACQYFVEMI  247 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~-~~a~~~~~~~~  247 (302)
                      ...-.-..++...|+++.|+..|+++.+.  .|+-. .-+.++.+-.+.... +...++|..|-
T Consensus       292 KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  292 KALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             hHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            66666666677777777777777776664  34333 333333333332222 23345555554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.31  E-value=0.13  Score=39.29  Aligned_cols=98  Identities=12%  Similarity=0.097  Sum_probs=51.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCC--CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC-CCCHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGV--CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC-VPNMHSYNILI  192 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~  192 (302)
                      .|+.-+..+ +.|++..|...|...++...  ......+-.|..++...|++++|..+|..+.+.... +--+..+-.|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            355444433 34556666666666665421  122344455566666666666666666666554211 11124445555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 022131          193 GMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      .+..+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            5555666666666666665554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.27  E-value=0.53  Score=38.94  Aligned_cols=147  Identities=16%  Similarity=0.198  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC
Q 022131           35 VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG-IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT  113 (302)
Q Consensus        35 ~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  113 (302)
                      .+|-..+....+          ...++.|..+|-+..+.+ ..+++..+++++..++ .|+...|.++|+--...- +-+
T Consensus       398 ~v~C~~~N~v~r----------~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f-~d~  465 (660)
T COG5107         398 FVFCVHLNYVLR----------KRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF-PDS  465 (660)
T ss_pred             hHHHHHHHHHHH----------HhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC-CCc
Confidence            345556665555          666788888898888887 5677888888888665 578888888888655542 223


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS--AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL  191 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  191 (302)
                      ..--...+..+.+.++-+.|..+|+...++ +..+  ...|..+|..-..-|+...+..+-+.+.+.   .|...+....
T Consensus       466 ~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~---~pQen~~evF  541 (660)
T COG5107         466 TLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL---VPQENLIEVF  541 (660)
T ss_pred             hHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH---cCcHhHHHHH
Confidence            333345666777888888888888865543 1122  567888888888888888888877777766   5666555555


Q ss_pred             HHHHHh
Q 022131          192 IGMFMA  197 (302)
Q Consensus       192 ~~~~~~  197 (302)
                      .+.|.-
T Consensus       542 ~Sry~i  547 (660)
T COG5107         542 TSRYAI  547 (660)
T ss_pred             HHHHhh
Confidence            555543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.26  E-value=0.21  Score=34.34  Aligned_cols=79  Identities=8%  Similarity=0.026  Sum_probs=57.1

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcC--CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKG--ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK  163 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  163 (302)
                      .....+.|++++|.+.|+.+...-  .+-...+-..++.+|.+.+++++|...+++.++..+......|...+.+++...
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            344557889999999999987762  122455667788899999999999999999988755444456666666665444


Q ss_pred             C
Q 022131          164 D  164 (302)
Q Consensus       164 ~  164 (302)
                      .
T Consensus        97 ~   97 (142)
T PF13512_consen   97 Q   97 (142)
T ss_pred             H
Confidence            3

>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=96.23  E-value=0.39  Score=40.42  Aligned_cols=155  Identities=10%  Similarity=0.055  Sum_probs=80.6

Q ss_pred             HhcCCchhHHHHHHHHH-hcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHH
Q 022131           90 SRAHQPQLSLDKLNFMK-EKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGA  168 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  168 (302)
                      .-.++++.+.+..+.-. -..+  +..-.+.++..+.+.|..+.|+.+...-.            .-.....+.|+.+.|
T Consensus       272 v~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A  337 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIA  337 (443)
T ss_dssp             HHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHH
T ss_pred             HHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHH
Confidence            34566666555554111 1111  23346667777777777777766643321            123334566666666


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          169 MKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .++..+       .++...|..|.+...+.|+++-|++.+++..+         |..|+-.|...|+.+...++.+....
T Consensus       338 ~~~a~~-------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  338 LEIAKE-------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             HHHCCC-------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHh-------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            654432       24566777777777777777777777776542         34555566666776666666666555


Q ss_pred             CCCCCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          249 KGLLPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       249 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      .|-      ++..+.++.-.|+.++..+++.+
T Consensus       402 ~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  402 RGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             TT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            432      34445555556666666665543

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.22  E-value=0.56  Score=38.79  Aligned_cols=126  Identities=13%  Similarity=0.178  Sum_probs=81.9

Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHH----HHHHh---cCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHH--HH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILI----GMFMA---LNRMDMVREIWNDVKGSGLGPD----LDSYTMLIHG--LC  231 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~----~~~~~---~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~--~~  231 (302)
                      -++++.+++.+.+-.  +-|..+-|.+.    .+|..   ...+..-..+-+-+.+.|++|-    ...-|.|.++  +.
T Consensus       396 dekalnLLk~il~ft--~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLy  473 (549)
T PF07079_consen  396 DEKALNLLKLILQFT--NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLY  473 (549)
T ss_pred             cHHHHHHHHHHHHhc--cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHH
Confidence            566777777776653  34444333332    22222   2334444445555566677763    3455555544  46


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCcccchhh
Q 022131          232 EKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITFGSEFQN  294 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  294 (302)
                      ..|++.++.-.-.-+.+  +.|++.+|..+.-++....++++|..++..+....-..++.+..
T Consensus       474 sqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~n~~~~dskvqK  534 (549)
T PF07079_consen  474 SQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPPNERMRDSKVQK  534 (549)
T ss_pred             hcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCCchhhHHHHHHH
Confidence            78999998877766655  78999999999989999999999999999987655444444443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.21  E-value=0.37  Score=36.65  Aligned_cols=156  Identities=15%  Similarity=0.110  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc-------c
Q 022131           57 EKTIRNAEKVFDEMRVRGI--EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS-------C  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~  127 (302)
                      .|++++|.+.|+.+..+-+  +-...+--.++.++.+.++++.|...+++..+.-..-....|...|.+.+.       .
T Consensus        47 ~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~~  126 (254)
T COG4105          47 KGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDVT  126 (254)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCccc
Confidence            5788888888888886521  123455666777888889999988888888776433233344444444442       1


Q ss_pred             CCHH---HHHHHHHHHHHC----CCCCChhh------------HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCH---
Q 022131          128 GRIE---DAEELLGEMVRN----GVCPSAET------------YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNM---  185 (302)
Q Consensus       128 ~~~~---~a~~~~~~~~~~----~~~~~~~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---  185 (302)
                      .|..   +|..-|+++++.    .-.||...            =..+.+.|.+.|.+..|..-++++.+.-  +-+.   
T Consensus       127 rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y--~~t~~~~  204 (254)
T COG4105         127 RDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENY--PDTSAVR  204 (254)
T ss_pred             cCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhcc--ccccchH
Confidence            2333   344444444443    11223221            1355678999999999999999998873  2332   


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ..+-.+..+|...|-.++|.+.-.-+...
T Consensus       205 eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         205 EALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            34556678888999999988877666553

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.18  E-value=0.53  Score=38.17  Aligned_cols=251  Identities=11%  Similarity=0.054  Sum_probs=141.9

Q ss_pred             cCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH--HHHHHHHHH
Q 022131           12 INRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT--SFSIVLHVY   89 (302)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~   89 (302)
                      .|+-..|.++-.+..+. +..|......++.+-...        +.|+++.|.+-|+.|...   |...  -...|.-.-
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal--------~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleA  164 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAAL--------LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEA  164 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHH--------hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHH
Confidence            35555565555444322 333555555555543331        167778888888887753   1211  112222223


Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-------------------------
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNG-------------------------  144 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------------------------  144 (302)
                      .+.|+.+.|.++-+..-..-. --...+...+...+..|+++.|+++++.-....                         
T Consensus       165 qr~GareaAr~yAe~Aa~~Ap-~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~lda  243 (531)
T COG3898         165 QRLGAREAARHYAERAAEKAP-QLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDA  243 (531)
T ss_pred             HhcccHHHHHHHHHHHHhhcc-CCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcC
Confidence            356666777766666655432 234566777777777777777777776543321                         


Q ss_pred             --------------CCCChh-hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022131          145 --------------VCPSAE-TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWN  209 (302)
Q Consensus       145 --------------~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (302)
                                    +.|+.. .-....+++.+.|+..++-.+++.+-+.   .|.+..+..  ..+.+.|+.  +..-++
T Consensus       244 dp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~l--Y~~ar~gdt--a~dRlk  316 (531)
T COG3898         244 DPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALL--YVRARSGDT--ALDRLK  316 (531)
T ss_pred             ChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHH--HHHhcCCCc--HHHHHH
Confidence                          122211 1123345667778888888888887776   344443322  223344442  333333


Q ss_pred             HHHhC-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHh-hcchHHHHHHHHHhcccc
Q 022131          210 DVKGS-GLGP-DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLI-QSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       210 ~~~~~-~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~  284 (302)
                      ...+. .++| +..+--.+..+-...|++..|..--+...+  ..|....|..|.+.-. ..|+-.++.+++.+-.+.
T Consensus       317 Ra~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         317 RAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            22221 1233 455666677777888888888777666644  4677777877776544 458888888888776543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.16  E-value=0.22  Score=33.61  Aligned_cols=65  Identities=17%  Similarity=0.270  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGL  251 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  251 (302)
                      ......++.....|+-|.-.++...+.+. -.+++...-.+..+|.+.|+..++.+++.+..+.|+
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34455566666777777777777766542 356666666777777777777777777777777665

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.18  Score=40.75  Aligned_cols=126  Identities=8%  Similarity=0.025  Sum_probs=92.1

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhc-----CC---------CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhh
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEK-----GI---------CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAET  151 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~-----~~---------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  151 (302)
                      .+.+.+.|++..|..-|++....     +.         ..-..++..+.-++.+.+++..|+...++.+..+. +|.-.
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhH
Confidence            34577788888888887775432     11         11244677888899999999999999999998854 67888


Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhC
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRM-DMVREIWNDVKGS  214 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  214 (302)
                      ...-.+++...|+++.|...|+.+.+..  +.|...-+.++.+-.+.... +...++|..|...
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~--P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLE--PSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            8888899999999999999999999984  44544444555544444443 3447788887753

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.09  E-value=0.27  Score=34.03  Aligned_cols=41  Identities=12%  Similarity=0.106  Sum_probs=17.9

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      ++..+...+.......+++.+...+. .+....+.++..|++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            33334444444444444444444432 344444444444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.06  E-value=0.28  Score=33.95  Aligned_cols=125  Identities=11%  Similarity=0.068  Sum_probs=80.0

Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR  162 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  162 (302)
                      ..++..+.+.+.+.....+++.+...+. .+...++.++..|++.+ ..+....++.   .   .+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            4577777778889999999999988773 57778999999998764 3344444432   1   2344455677777777


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL-NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLC  231 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  231 (302)
                      +-++++.-++.++...          ...+..+... ++.+.|.+++.+.      .+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~~----------~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGNF----------KDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcCH----------HHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            7777777777665221          1223333333 6677777766642      25556666666554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.03  E-value=0.66  Score=37.85  Aligned_cols=169  Identities=9%  Similarity=-0.070  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHHh---cCCchhHHHHHHHHHh
Q 022131           34 VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG---IEPDVTSFSIVLHVYSR---AHQPQLSLDKLNFMKE  107 (302)
Q Consensus        34 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~  107 (302)
                      ..+...++-+|-.          .++++...++.+.+....   +.-+...-....-++.+   .|+.++|++++..+..
T Consensus       141 ~div~~lllSyRd----------iqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~  210 (374)
T PF13281_consen  141 PDIVINLLLSYRD----------IQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLE  210 (374)
T ss_pred             hhHHHHHHHHhhh----------hhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHh
Confidence            3344455556777          899999999999998752   11122223344455666   8999999999999766


Q ss_pred             cCCCcCHHHHHHHHHHHhc---------cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC-ch---HHHHHH--
Q 022131          108 KGICPTVATYSSVVKCLCS---------CGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD-AN---GAMKLY--  172 (302)
Q Consensus       108 ~~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~--  172 (302)
                      ....+++.++..+.+.|-.         ....++|...|.+.-+..  |+..+=-.++..+...|+ .+   +..++-  
T Consensus       211 ~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~  288 (374)
T PF13281_consen  211 SDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVK  288 (374)
T ss_pred             ccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHH
Confidence            6667788899888887653         224677888887766542  333221112222222222 22   222222  


Q ss_pred             -H-HHHhCCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          173 -R-QMKEDGL--CVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       173 -~-~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                       . .+.+.|.  ...+-..+.+++.++.-.|+.++|.+..++|.+.
T Consensus       289 l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  289 LSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence             1 1222332  1345566688899999999999999999999976

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=0.53  Score=36.63  Aligned_cols=146  Identities=11%  Similarity=0.092  Sum_probs=104.5

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN  199 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (302)
                      -.......|+..+|..+|........ -+...-..+..+|...|+.+.+..++..+..... .........-+..+.+..
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~-~~~~~~l~a~i~ll~qaa  217 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ-DKAAHGLQAQIELLEQAA  217 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhCcccch-hhHHHHHHHHHHHHHHHh
Confidence            34456778999999999999988744 3466777889999999999999999999876532 222333334456666666


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCchhhHHHHHHHHhhcc
Q 022131          200 RMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGL-LPQKVTFETLYRGLIQSD  269 (302)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g  269 (302)
                      ...+...+-...-..  +-|...-..+...+...|+.+.|.+.+-.+.+++. .-|...-..++..+.-.|
T Consensus       218 ~~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         218 ATPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             cCCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            666666666666553  33777778889999999999999998877765522 235556666777666666

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.91  E-value=0.21  Score=38.26  Aligned_cols=98  Identities=14%  Similarity=0.130  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCC--CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CC-ChhhHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGI--CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV-CP-SAETYNCFF  156 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~l~  156 (302)
                      .|+..+..+ +.|++..|...|....+...  ......+--|..++...|++++|..+|..+.+.-. .| -+..+.-+.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            577777655 67889999999999988742  22344566689999999999999999999987622 12 246777788


Q ss_pred             HHHHccCCchHHHHHHHHHHhCC
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      .+..+.|+.++|..+|+++.+.-
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHC
Confidence            88899999999999999999883

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.85  E-value=0.54  Score=37.31  Aligned_cols=153  Identities=6%  Similarity=-0.065  Sum_probs=104.8

Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHH----HHHHHHHccCCc
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYN----CFFKEYRGRKDA  165 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~  165 (302)
                      ...|+..+|-..++++++. .+.|...+...=.+|.-.|+.......++++... ..++...|.    .+.-++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3467778888888888775 4557777888888888888888888888888754 223433332    223344577888


Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS---GLGPDLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      ++|.+.-++..+.+  +.|.-.-.++...+...|+..++.++..+-...   +--.-...|-...-.+...+.++.|+++
T Consensus       192 ~dAEk~A~ralqiN--~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  192 DDAEKQADRALQIN--RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             hhHHHHHHhhccCC--CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            88888888888776  567666677777777888888888877654432   1111123344455556677888889888


Q ss_pred             HHHH
Q 022131          243 FVEM  246 (302)
Q Consensus       243 ~~~~  246 (302)
                      |++=
T Consensus       270 yD~e  273 (491)
T KOG2610|consen  270 YDRE  273 (491)
T ss_pred             HHHH
Confidence            8754

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.82  E-value=1.2  Score=39.26  Aligned_cols=116  Identities=9%  Similarity=0.083  Sum_probs=87.7

Q ss_pred             CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 022131          144 GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSY  223 (302)
Q Consensus       144 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  223 (302)
                      |.....-+.+--+.-+...|+..+|.++-.+.+     -||-..|-.-+.+++..++|++-+++-+..+      ++.-|
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy  747 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGY  747 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCc
Confidence            333444556666777788899999988877765     6888999999999999999988777665443      35677


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHH
Q 022131          224 TMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKK  279 (302)
Q Consensus       224 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  279 (302)
                      ...+.+|.+.|+.++|.+++-+...     ..    -...+|.+.|++.+|.++.-
T Consensus       748 ~PFVe~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  748 LPFVEACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hhHHHHHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHH
Confidence            8899999999999999998876521     11    46677888888888777643

>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=95.74  E-value=0.17  Score=42.51  Aligned_cols=159  Identities=11%  Similarity=0.052  Sum_probs=100.4

Q ss_pred             HHHHhcCCcchHHHHHHHHH-hCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMI-ERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIV   85 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   85 (302)
                      +...-.|+++++.++...-. -..++  ....+.++..+-+          .|..+.|+++-.+         ..   .-
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~----------~G~~e~AL~~~~D---------~~---~r  324 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEK----------KGYPELALQFVTD---------PD---HR  324 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHH----------TT-HHHHHHHSS----------HH---HH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHH----------CCCHHHHHhhcCC---------hH---HH
Confidence            34456788888877775211 11122  4456777777777          7777777766433         22   23


Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      .....+.|+++.|.++.++.      .+...|..|.....+.|+++-|+..|++..+         +..++-.|...|+.
T Consensus       325 FeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~  389 (443)
T PF04053_consen  325 FELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDR  389 (443)
T ss_dssp             HHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-H
T ss_pred             hHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCH
Confidence            34456788888887655432      3677899999999999999999999887643         56677778889998


Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDV  211 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (302)
                      +...++.......|.       ++....++.-.|+.++..+++.+.
T Consensus       390 ~~L~kl~~~a~~~~~-------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  390 EKLSKLAKIAEERGD-------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHHHHHHHHHHHTT--------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHccC-------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            888888888887763       345555666678888888777654

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.74  E-value=0.23  Score=38.58  Aligned_cols=77  Identities=16%  Similarity=0.086  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCchhhHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE-----KGLLPQKVTFETL  261 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~~l  261 (302)
                      ++..++..+...|+.+.+...++++... -+-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~-dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL-DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc-CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4555666666677777777777777665 344666777777777777777777777776654     3667766666555


Q ss_pred             HHH
Q 022131          262 YRG  264 (302)
Q Consensus       262 ~~~  264 (302)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.65  E-value=1.1  Score=37.30  Aligned_cols=147  Identities=14%  Similarity=0.173  Sum_probs=112.2

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHH-HHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNG-VCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHS-YNI  190 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~  190 (302)
                      -..+|...++...+..-++.|..+|-++.+.+ ..++...+++++..++ .|++.-|..+|+--...   -||... .+.
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~k  471 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEK  471 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHH
Confidence            35578888998888889999999999999988 5678888899988665 56788899999876665   344444 456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHh
Q 022131          191 LIGMFMALNRMDMVREIWNDVKGSGLGPD--LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLI  266 (302)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  266 (302)
                      .+..+.+.++-..|..+|+....+ +..+  ...|..+|+-=..-|+...+..+=++|.+  +.|-..+...+..-|.
T Consensus       472 yl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry~  546 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHHh
Confidence            677778899999999999965543 2223  56899999988899999999988888876  4566655555554444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.64  E-value=0.3  Score=32.94  Aligned_cols=91  Identities=12%  Similarity=-0.030  Sum_probs=46.6

Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHHcC
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDS---YTMLIHGLCEKQ  234 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g  234 (302)
                      +.+..|+.+.|++.|.+....-  +.....||.-.+++.-.|+.++|.+-+++..+..-..+...   |..=...|...|
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 ALAEAGDLDGALELFGQALCLA--PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc--ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            3455566666666666655543  44555666666666666666666666655555311112211   222222344455


Q ss_pred             CHHHHHHHHHHHHHCC
Q 022131          235 KWKEACQYFVEMIEKG  250 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~  250 (302)
                      +-+.|..=|...-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            5566655555554444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=95.63  E-value=0.91  Score=36.46  Aligned_cols=87  Identities=15%  Similarity=0.245  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHH
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGL  265 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  265 (302)
                      .+.+..+.-+...|+...|.++-.+..    -|+...|..-+.+++..++|++..++...      +-++.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            345666777788999999888877663    37999999999999999999988776542      22457899999999


Q ss_pred             hhcchHHHHHHHHHhcc
Q 022131          266 IQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       266 ~~~g~~~~a~~~~~~~~  282 (302)
                      .+.|...+|..+..++.
T Consensus       248 ~~~~~~~eA~~yI~k~~  264 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKIP  264 (319)
T ss_pred             HHCCCHHHHHHHHHhCC
Confidence            99999999999988843

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

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.53  E-value=0.066  Score=28.49  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=9.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHH
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      +...|.+.|++++|+++|++..+
T Consensus         7 la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    7 LARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            33333333444444444433333

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.52  E-value=1.1  Score=36.52  Aligned_cols=220  Identities=12%  Similarity=0.086  Sum_probs=142.3

Q ss_pred             HhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHH
Q 022131           10 CKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD-VTSFSIVLHV   88 (302)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~   88 (302)
                      .-.|+++.|.+-|+-|...     +.+-..=++++.-...     + .|..+.|.+.-++....  .|. .-.+...+..
T Consensus       131 l~eG~~~~Ar~kfeAMl~d-----PEtRllGLRgLyleAq-----r-~GareaAr~yAe~Aa~~--Ap~l~WA~~AtLe~  197 (531)
T COG3898         131 LLEGDYEDARKKFEAMLDD-----PETRLLGLRGLYLEAQ-----R-LGAREAARHYAERAAEK--APQLPWAARATLEA  197 (531)
T ss_pred             HhcCchHHHHHHHHHHhcC-----hHHHHHhHHHHHHHHH-----h-cccHHHHHHHHHHHHhh--ccCCchHHHHHHHH
Confidence            4569999999999999863     3333333333221000     0 56667777777666654  233 4567778888


Q ss_pred             HHhcCCchhHHHHHHHHHhcC---------------------------------------CCcCHHH-HHHHHHHHhccC
Q 022131           89 YSRAHQPQLSLDKLNFMKEKG---------------------------------------ICPTVAT-YSSVVKCLCSCG  128 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~---------------------------------------~~~~~~~-~~~ll~~~~~~~  128 (302)
                      .+..|+|+.|+++++.-+...                                       +.||... -..-..++.+.|
T Consensus       198 r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~  277 (531)
T COG3898         198 RCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVAARALFRDG  277 (531)
T ss_pred             HHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhcc
Confidence            888999999998887654321                                       1122111 122345677889


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 022131          129 RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC-VPNMHSYNILIGMFMALNRMDMVREI  207 (302)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (302)
                      +..++-.+++.+-+....|+  .+...  .+.+.|+  .+.+-+++....... +.+..+...+..+....|++..|..-
T Consensus       278 ~~rKg~~ilE~aWK~ePHP~--ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~  351 (531)
T COG3898         278 NLRKGSKILETAWKAEPHPD--IALLY--VRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAK  351 (531)
T ss_pred             chhhhhhHHHHHHhcCCChH--HHHHH--HHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHH
Confidence            99999999999988754444  33322  2345554  344444443322111 44566777788888899999988887


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHCC
Q 022131          208 WNDVKGSGLGPDLDSYTMLIHGLCE-KQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~  250 (302)
                      -+....  ..|....|..|.+.-.. .||-.++...+.+.++..
T Consensus       352 Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         352 AEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             HHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence            777665  47888888888877644 499999999999887753

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.50  E-value=1.4  Score=39.39  Aligned_cols=142  Identities=14%  Similarity=0.172  Sum_probs=97.2

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      ...+.+.|++++|...|-+-... +.|     ..++.-|....+..+-..+++.+.+.|+ .+...-..|+.+|.+.++.
T Consensus       375 gd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~  447 (933)
T KOG2114|consen  375 GDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDV  447 (933)
T ss_pred             HHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcch
Confidence            34455789999999887766543 233     2356666777788888889999999988 5777888899999999999


Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 022131          166 NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVE  245 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  245 (302)
                      ++..++.+... .|...-|   ....+..+.+.+-.++|..+-.+...     +......++.   ..+++++|++++..
T Consensus       448 ~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ille---~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  448 EKLTEFISKCD-KGEWFFD---VETALEILRKSNYLDEAELLATKFKK-----HEWVLDILLE---DLHNYEEALRYISS  515 (933)
T ss_pred             HHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHHH---HhcCHHHHHHHHhc
Confidence            98888777665 3321223   34556666677777777776655443     3333343333   46778888888776


Q ss_pred             H
Q 022131          246 M  246 (302)
Q Consensus       246 ~  246 (302)
                      +
T Consensus       516 l  516 (933)
T KOG2114|consen  516 L  516 (933)
T ss_pred             C
Confidence            5

>PRK11906 transcriptional regulator; Provisional

Probab=95.48  E-value=1.3  Score=37.08  Aligned_cols=156  Identities=14%  Similarity=0.068  Sum_probs=99.0

Q ss_pred             cchHHHHHHHHHhC-CCccc-HHHHHHHHHHHHhccc--CCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           15 IDMAERFLGEMIER-GVEPN-VVTYNVLLNGVCRRAS--LHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        15 ~~~a~~~~~~~~~~-~~~~~-~~~~~~ll~~~~~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      .+.|..+|.+.... ...|+ ...|..+-.++...--  +.+   ......+|.++-+...+.+ +.|......+..+..
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~---~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~  349 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSE---LELAAQKALELLDYVSDIT-TVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCC---chHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            46788889888832 23444 3344444443333100  111   1567788888888888876 447888888888888


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHccCCchHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP-SAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      -.++.+.+..+|++....+.. ...+|........-+|+.++|.+.+++..+..+.. -.......+..|+.++ .+.+.
T Consensus       350 ~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~  427 (458)
T PRK11906        350 LSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNI  427 (458)
T ss_pred             hhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhH
Confidence            888899999999999887532 45566666666777899999999999977653211 1222233344555544 56666


Q ss_pred             HHHHHHH
Q 022131          170 KLYRQMK  176 (302)
Q Consensus       170 ~~~~~~~  176 (302)
                      +++-+-.
T Consensus       428 ~~~~~~~  434 (458)
T PRK11906        428 KLYYKET  434 (458)
T ss_pred             HHHhhcc
Confidence            6665433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.43  E-value=0.1  Score=42.39  Aligned_cols=223  Identities=13%  Similarity=0.040  Sum_probs=130.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCCchhHHHHHHHH--Hh--cCCC-cCHHHHHHHHHHHhcc
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDV----TSFSIVLHVYSRAHQPQLSLDKLNFM--KE--KGIC-PTVATYSSVVKCLCSC  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~--~~--~~~~-~~~~~~~~ll~~~~~~  127 (302)
                      .|+......+|+...+.|.. |.    ..|..|..+|.-.+++++|+++...=  ..  .|-+ -...+...|.+.+--.
T Consensus        30 ~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~  108 (639)
T KOG1130|consen   30 MGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVK  108 (639)
T ss_pred             ccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhh
Confidence            77788889999999988733 43    35667778888888999998864321  11  1100 0122233445555556


Q ss_pred             CCHHHHHHHHHHH----HHCCC-CCChhhHHHHHHHHHccCCc--------------------hHHHHHHHHHHh----C
Q 022131          128 GRIEDAEELLGEM----VRNGV-CPSAETYNCFFKEYRGRKDA--------------------NGAMKLYRQMKE----D  178 (302)
Q Consensus       128 ~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~----~  178 (302)
                      |.+++|.-...+-    .+.|- ......+..+...|...|.-                    +.|.++|.+=.+    .
T Consensus       109 G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~l  188 (639)
T KOG1130|consen  109 GAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEKL  188 (639)
T ss_pred             cccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            7777765443321    22221 12334455566666544421                    223333332211    1


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 022131          179 GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVK----GSGLG-PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK----  249 (302)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----  249 (302)
                      |-.-.-...|..|...|.-.|+++.|+...+.-.    +.|-+ .....+..+..++.-.|+++.|.+.|+.....    
T Consensus       189 gDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAiel  268 (639)
T KOG1130|consen  189 GDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIEL  268 (639)
T ss_pred             hhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHh
Confidence            1001122345556666666788999987765422    22322 23456778889999999999999999876432    


Q ss_pred             CC-CCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          250 GL-LPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       250 ~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      |- .....+..+|.+.|.-..++++|+.++.+
T Consensus       269 g~r~vEAQscYSLgNtytll~e~~kAI~Yh~r  300 (639)
T KOG1130|consen  269 GNRTVEAQSCYSLGNTYTLLKEVQKAITYHQR  300 (639)
T ss_pred             cchhHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            21 22344566788888888899999888765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.36  E-value=0.061  Score=28.61  Aligned_cols=41  Identities=12%  Similarity=0.135  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV  121 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  121 (302)
                      .++..+...|.+.|++++|.++|+++.+... -|...+..+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P-~~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDP-DDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CCHHHHHHhh
Confidence            4677889999999999999999999999853 3666665543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.35  E-value=1.1  Score=35.59  Aligned_cols=151  Identities=18%  Similarity=0.190  Sum_probs=92.4

Q ss_pred             hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc--cC----CHHHHHHHHHHHHHCCC---CCChhhHHHHHHHHHccCCc-
Q 022131           96 QLSLDKLNFMKEKGICPTVATYSSVVKCLCS--CG----RIEDAEELLGEMVRNGV---CPSAETYNCFFKEYRGRKDA-  165 (302)
Q Consensus        96 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~-  165 (302)
                      ++.+.+++.|.+.|+..+..+|-+.......  ..    ....|..+|+.|++..+   .++...+..++..  ..++. 
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            4567788899999998887776654433333  22    34578899999998742   2344455555443  33333 


Q ss_pred             ---hHHHHHHHHHHhCCCCCCCHH-HHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH---
Q 022131          166 ---NGAMKLYRQMKEDGLCVPNMH-SYNILIGMFMALNR--MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW---  236 (302)
Q Consensus       166 ---~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---  236 (302)
                         +.+..+|+.+.+.|..+.|.- ..+.++..+.....  ...+.++++.+.+.|+++....|..+.-...-.+..   
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~  236 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKI  236 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHH
Confidence               457788888888776444543 33333333332222  447888999999999998888877665444333333   


Q ss_pred             -HHHHHHHHHHHH
Q 022131          237 -KEACQYFVEMIE  248 (302)
Q Consensus       237 -~~a~~~~~~~~~  248 (302)
                       +...++.+.+.+
T Consensus       237 ~~~i~ev~~~L~~  249 (297)
T PF13170_consen  237 VEEIKEVIDELKE  249 (297)
T ss_pred             HHHHHHHHHHHhh
Confidence             344444444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.29  E-value=0.55  Score=31.75  Aligned_cols=90  Identities=19%  Similarity=0.162  Sum_probs=49.4

Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHH---HHHHHHHHHhcCC
Q 022131          124 LCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHS---YNILIGMFMALNR  200 (302)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~  200 (302)
                      .+..|+++.|++.|.+.+..- +-....||.-.+++.-.|+.++|++=+.+..+... ..+...   |..-...|...|+
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag-~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAG-DQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHhCc
Confidence            445566666666666665542 23555666666666666666666666666555432 122111   2222234455666


Q ss_pred             HHHHHHHHHHHHhCC
Q 022131          201 MDMVREIWNDVKGSG  215 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~  215 (302)
                      -+.|..-|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666665554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.28  E-value=0.93  Score=34.35  Aligned_cols=117  Identities=9%  Similarity=0.082  Sum_probs=66.0

Q ss_pred             ccCCchHHHHHHHHHHhC----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHH
Q 022131          161 GRKDANGAMKLYRQMKED----GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS----GLGPD-LDSYTMLIHGLC  231 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~  231 (302)
                      ..-++++|+++|.+....    +....-...+..+...+.+...+++|-..+.+-...    .--++ -..|-..|-.+.
T Consensus       122 env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L  201 (308)
T KOG1585|consen  122 ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYL  201 (308)
T ss_pred             hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHh
Confidence            445666677776665322    110111233445556666777777776665543221    01122 234555566667


Q ss_pred             HcCCHHHHHHHHHHHHHCC---CCCchhhHHHHHHHHhhcchHHHHHHHH
Q 022131          232 EKQKWKEACQYFVEMIEKG---LLPQKVTFETLYRGLIQSDMLRTWRRLK  278 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~a~~~~  278 (302)
                      ...++..|...++.-.+.+   -.-+..+...|+.+| ..|+.+++..++
T Consensus       202 ~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  202 YAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             hHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            7778889998888754432   122456777777775 457777777764

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.28  E-value=0.39  Score=37.38  Aligned_cols=79  Identities=10%  Similarity=0.126  Sum_probs=66.1

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG-----SGLGPDLDSY  223 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  223 (302)
                      ..++..++..+...|+.+.+...++++....  +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+.
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d--p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD--PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            4466778888888899999999999998887  77888999999999999999999999888765     5888888877


Q ss_pred             HHHHHH
Q 022131          224 TMLIHG  229 (302)
Q Consensus       224 ~~li~~  229 (302)
                      ......
T Consensus       231 ~~y~~~  236 (280)
T COG3629         231 ALYEEI  236 (280)
T ss_pred             HHHHHH
Confidence            766665

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.23  E-value=0.73  Score=32.89  Aligned_cols=139  Identities=13%  Similarity=0.167  Sum_probs=86.3

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHH-HHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAE-TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMH-SYNI  190 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~  190 (302)
                      +...|..-++. ++.+..++|+.-|..+.+.|...-+. .-..+.......|+...|...|+++-.... .|-.. -...
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~-~P~~~rd~AR  135 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTS-IPQIGRDLAR  135 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCC-CcchhhHHHH
Confidence            45566666654 55677888888888888876532221 222333455778888888888888877753 33322 1111


Q ss_pred             H--HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 022131          191 L--IGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP  253 (302)
Q Consensus       191 l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p  253 (302)
                      |  .-.+...|.++.+..-.+-+...+-+.....-..|--+-.+.|++.+|.+.|..+.+....|
T Consensus       136 lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         136 LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            1  12344567788777777766655444444445566666678888888888888876643333

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.97  E-value=0.89  Score=32.46  Aligned_cols=16  Identities=31%  Similarity=0.216  Sum_probs=6.3

Q ss_pred             HHHHHcCCHHHHHHHH
Q 022131          228 HGLCEKQKWKEACQYF  243 (302)
Q Consensus       228 ~~~~~~g~~~~a~~~~  243 (302)
                      +.+...|++-+|+++.
T Consensus        97 evLL~~g~vl~ALr~a  112 (167)
T PF07035_consen   97 EVLLSKGQVLEALRYA  112 (167)
T ss_pred             HHHHhCCCHHHHHHHH
Confidence            3333344444444333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.95  E-value=2  Score=36.29  Aligned_cols=76  Identities=9%  Similarity=0.142  Sum_probs=49.4

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      -..+..++-+.|+.++|++.+++|.+.... ........|+.++...+.+.++..++.+-.+....+.-..+|+..+
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            345566666778888888888888754221 2344667788888888888888888888755443122234455544

The molecular function of this protein is uncertain.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.94  E-value=1.1  Score=33.43  Aligned_cols=199  Identities=16%  Similarity=0.069  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhc-CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEK-GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      ..........+...++...+...+...... ........+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            344445555555555555555555554431 122234444445555555555555555555555432221 111222222


Q ss_pred             -HHHccCCchHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcC
Q 022131          158 -EYRGRKDANGAMKLYRQMKEDGLC-VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP-DLDSYTMLIHGLCEKQ  234 (302)
Q Consensus       158 -~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g  234 (302)
                       .+...|+++.+...+.+....... ......+......+...++.+.+...+....... .. ....+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcc
Confidence             455555555555555555432100 0122223333333445555556665555555531 12 2444555555555555


Q ss_pred             CHHHHHHHHHHHHHCCCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhc
Q 022131          235 KWKEACQYFVEMIEKGLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  281 (302)
                      +++.+...+......  .|+ ...+..+...+...+..+++...+.+.
T Consensus       217 ~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (291)
T COG0457         217 KYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKA  262 (291)
T ss_pred             cHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHH
Confidence            556666655555442  222 222333333333444455555544443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.93  E-value=3.3  Score=38.81  Aligned_cols=80  Identities=14%  Similarity=0.127  Sum_probs=47.1

Q ss_pred             HHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHHc
Q 022131          156 FKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL--DSYTMLIHGLCEK  233 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~  233 (302)
                      ...+.....+++|.-+|+..-+.          ...+.+|..+|+|.+|..+..++...   -+.  .+-..|+.-+...
T Consensus       946 a~hL~~~~~~~~Aal~Ye~~Gkl----------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  946 ADHLREELMSDEAALMYERCGKL----------EKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHhccccHHHHHHHHhccH----------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHc
Confidence            33344556666666665544322          23466777777777777777666432   121  2225566777777


Q ss_pred             CCHHHHHHHHHHHHH
Q 022131          234 QKWKEACQYFVEMIE  248 (302)
Q Consensus       234 g~~~~a~~~~~~~~~  248 (302)
                      +++-+|-++..+...
T Consensus      1013 ~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLS 1027 (1265)
T ss_pred             ccchhHHHHHHHHhc
Confidence            777777777766543

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.81  E-value=0.91  Score=32.97  Aligned_cols=61  Identities=10%  Similarity=0.179  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPD--LDSYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      .+..+...|.+.|+.+.|.+.+.++.+....+.  ...+-.+|+.....+++..+...+.+..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            344555666666666666666666555432222  2334455555566666666666655554

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.79  E-value=3.2  Score=38.86  Aligned_cols=118  Identities=15%  Similarity=0.140  Sum_probs=71.7

Q ss_pred             CcCHHHHHHHH----HHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHH
Q 022131          111 CPTVATYSSVV----KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMH  186 (302)
Q Consensus       111 ~~~~~~~~~ll----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  186 (302)
                      .|+...+....    ..+.....+++|--.|+..-+.         ...+.+|...|+|.+++.+..++....  .--..
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~--de~~~ 1000 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEGK--DELVI 1000 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCH--HHHHH
Confidence            34555444444    4444566777777766655331         245677888889999888888775432  01111


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      +-..|+.-+...++.-+|-++..+..+.   |     ...+..+++...+++|+++.....
T Consensus      1001 ~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1001 LAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence            2256777777888888888887776653   2     223445566666777777665443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.69  E-value=1.1  Score=32.09  Aligned_cols=123  Identities=11%  Similarity=0.131  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHH-HHHHH--HHHHhccCCHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPD-VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVA-TYSSV--VKCLCSCGRIED  132 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--l~~~~~~~~~~~  132 (302)
                      .+..++|+..|.++.+.|...- .-..-.+.....+.|+...|...|.++-.....|-.. -...|  .-.+...|.+++
T Consensus        71 ~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~d  150 (221)
T COG4649          71 ENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYDD  150 (221)
T ss_pred             cCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHHH
Confidence            3444566666666666554311 1122233444555666666666666665443223222 11111  122345566666


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          133 AEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      ...-.+.+...+-+.....-..|.-+-.+.|++.+|...|..+-...
T Consensus       151 V~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da  197 (221)
T COG4649         151 VSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDA  197 (221)
T ss_pred             HHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccc
Confidence            66666655544433334444455555556666666666666666554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.69  E-value=1.8  Score=34.58  Aligned_cols=153  Identities=5%  Similarity=-0.027  Sum_probs=93.1

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc---CCCCCHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR---GIEPDVTSFSIVLH   87 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~   87 (302)
                      ..|++-+|-..++++++. .|.|...++..=.++..          .|........++++...   +++-.......+.-
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy----------~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaF  183 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFY----------NGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAF  183 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHh----------ccchhhhhhHHHHhccccCCCCcHHHHHHHHHHh
Confidence            456777777777777765 45566677777777777          44444555555555432   12222233344445


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC---CCCCChhhHHHHHHHHHccCC
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN---GVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      ++...|-+++|++.-++..+.+ +.|.....++...+-..|++.++.+...+-...   +.-.-..-|=...-.+...+.
T Consensus       184 gL~E~g~y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~ae  262 (491)
T KOG2610|consen  184 GLEECGIYDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAE  262 (491)
T ss_pred             hHHHhccchhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccc
Confidence            5667888888888888887775 346777777777777888888888776654332   000001111122223456688


Q ss_pred             chHHHHHHHHH
Q 022131          165 ANGAMKLYRQM  175 (302)
Q Consensus       165 ~~~a~~~~~~~  175 (302)
                      ++.|+.+|+.-
T Consensus       263 ye~aleIyD~e  273 (491)
T KOG2610|consen  263 YEKALEIYDRE  273 (491)
T ss_pred             hhHHHHHHHHH
Confidence            88888888754

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.65  E-value=2.8  Score=36.75  Aligned_cols=183  Identities=15%  Similarity=0.121  Sum_probs=110.7

Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHH--HHH-HHhcCCchhHHHHHHHHHh-------cCCCcCHHHHHHHHHHHhccC
Q 022131           59 TIRNAEKVFDEMRVRGIEPDVTSFSIV--LHV-YSRAHQPQLSLDKLNFMKE-------KGICPTVATYSSVVKCLCSCG  128 (302)
Q Consensus        59 ~~~~a~~~~~~~~~~~~~~~~~~~~~l--l~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~  128 (302)
                      +...+.+.++.....|.. .....-..  ..+ +....|.+.|+.+++.+.+       .|   .......+..+|.+..
T Consensus       227 ~~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~  302 (552)
T KOG1550|consen  227 ELSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGL  302 (552)
T ss_pred             hhhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCC
Confidence            357788899988887622 22222222  222 4466788999999998877       45   2334556677776643


Q ss_pred             -----CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc-cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH--hcCC
Q 022131          129 -----RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG-RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFM--ALNR  200 (302)
Q Consensus       129 -----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~  200 (302)
                           +.+.|..++.+.-+.|. |+.......+..... ..+...|.++|...-+.|.  +...-+..++....  ...+
T Consensus       303 ~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~--~~A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  303 GVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH--ILAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC--hHHHHHHHHHHHhCCCcCCC
Confidence                 67789999999988876 555544333332222 2456789999999998873  33333333222222  3356


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 022131          201 MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  250 (302)
                      ...|..++.+..+.| .|....-...+..+.. +.++.+.-.+..+.+.|
T Consensus       380 ~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            888999999988887 3332222223333333 66666666666555544

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.60  E-value=0.12  Score=26.00  Aligned_cols=26  Identities=12%  Similarity=0.256  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      +|+.|...|.+.|++++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35666777777777777777777643

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.58  E-value=1.2  Score=32.28  Aligned_cols=63  Identities=10%  Similarity=0.148  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC--HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT--VATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+..+|+...-.+++..+...+.+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4566777778888888888888888777644333  23456667777777777777777766554

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=94.48  E-value=0.49  Score=37.14  Aligned_cols=105  Identities=12%  Similarity=0.121  Sum_probs=73.9

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC---CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh
Q 022131           73 RGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG---ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSA  149 (302)
Q Consensus        73 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  149 (302)
                      .|.+....+...++..-....+++.++..+-++...-   ..|+. +-.+.++.+.+ -+.++++.++..=++.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            3444455566666666666778888888877775431   11111 22233444433 3667888888888888999999


Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      .+++.+|+.+.+.+++.+|.++...|....
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            999999999999999999998888877664

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.36  E-value=0.48  Score=30.00  Aligned_cols=60  Identities=13%  Similarity=0.208  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHH
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV  121 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  121 (302)
                      -++.+-++.+...+..|++....+.+++|.+.+|+..|.++|+-.+... ..+...|..++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~l   83 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHH
Confidence            3455666777777777788888888888888888888888887776432 11334555554

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.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.35  E-value=1.2  Score=31.36  Aligned_cols=119  Identities=13%  Similarity=0.070  Sum_probs=69.1

Q ss_pred             hhHHHHHHH---HHccCCchHHHHHHHHHHhCCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022131          150 ETYNCFFKE---YRGRKDANGAMKLYRQMKEDGLCVPNMHS-YNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTM  225 (302)
Q Consensus       150 ~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (302)
                      .+.+.|+..   -...++.+.+..++..+.-..   |.... -..-...+...|+|.+|.++|+.+...  .|....-..
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLR---P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kA   82 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVLR---PEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKA   82 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHhC---CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHH
Confidence            344444443   357788899999999888773   43332 233344567889999999999998765  344444555


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHH
Q 022131          226 LIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRR  276 (302)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  276 (302)
                      |+..|.....-..=...-+++.+.+-  |..+ ..+++.+....+...|..
T Consensus        83 LlA~CL~~~~D~~Wr~~A~evle~~~--d~~a-~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   83 LLALCLYALGDPSWRRYADEVLESGA--DPDA-RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhcCC--ChHH-HHHHHHHHHhccccchhh
Confidence            55555443332222333444555443  3333 335566665555555544

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.32  E-value=3.4  Score=36.27  Aligned_cols=183  Identities=15%  Similarity=0.037  Sum_probs=113.5

Q ss_pred             chhHHHHHHHHHhcCCCcCHHHHHHH--HHH-HhccCCHHHHHHHHHHHHH-------CCCCCChhhHHHHHHHHHccC-
Q 022131           95 PQLSLDKLNFMKEKGICPTVATYSSV--VKC-LCSCGRIEDAEELLGEMVR-------NGVCPSAETYNCFFKEYRGRK-  163 (302)
Q Consensus        95 ~~~a~~~~~~~~~~~~~~~~~~~~~l--l~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  163 (302)
                      ...+.++++...+.|.. ........  ..+ +....+.+.|+.+|+...+       .|   .+.....+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            45788888888887632 12222222  222 4466799999999999877       44   3445667777777643 


Q ss_pred             ----CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----HcC
Q 022131          164 ----DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA-LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLC----EKQ  234 (302)
Q Consensus       164 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~g  234 (302)
                          +.+.|..++...-+.|  .|+.......+..... ..+...|.+.|....+.|..   ..+-.+..+|.    ...
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g--~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~r  378 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELG--NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVER  378 (552)
T ss_pred             CccccHHHHHHHHHHHHhcC--CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcCC
Confidence                5677999999999988  5776554444433333 34678999999999988643   22222333322    335


Q ss_pred             CHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCc
Q 022131          235 KWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITF  288 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  288 (302)
                      +...|..++.+.-+.| .|...--...+..+.. ++.+.+.-.+..+.+.|...
T Consensus       379 ~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~  430 (552)
T KOG1550|consen  379 NLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEV  430 (552)
T ss_pred             CHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhH
Confidence            7889999999998887 3332222223333344 66666666555555555443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.29  E-value=0.13  Score=25.95  Aligned_cols=24  Identities=17%  Similarity=0.151  Sum_probs=14.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHH
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEM  140 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~  140 (302)
                      |..|...|.+.|++++|+.++++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455566666666666666666653

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.27  E-value=1.4  Score=31.53  Aligned_cols=136  Identities=10%  Similarity=0.156  Sum_probs=91.1

Q ss_pred             HHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC--CchHHHHHHHHH
Q 022131           98 SLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK--DANGAMKLYRQM  175 (302)
Q Consensus        98 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~  175 (302)
                      ..++++.+.+.+++|+...+..+++.+.+.|++...    .++.+.++-+|.......+-.+....  -..-+.+++.++
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHh
Confidence            356777778889999999999999999999986654    55556666677666655554333321  123345555544


Q ss_pred             HhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 022131          176 KEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  250 (302)
                      ..         .+..+++.+...|++-+|.++.+.....    +......++++..+.+|...-..+++-..+.+
T Consensus        89 ~~---------~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   89 GT---------AYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             hh---------hHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            32         2356777888999999999998876432    22233557777777888777777776665543

>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=94.13  E-value=0.041  Score=38.31  Aligned_cols=83  Identities=12%  Similarity=0.127  Sum_probs=46.0

Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++.       .+..-...+++.|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcch
Confidence            4555666667777777777777655455666777777777777666666666551       111222344444455555


Q ss_pred             chHHHHHHHH
Q 022131          165 ANGAMKLYRQ  174 (302)
Q Consensus       165 ~~~a~~~~~~  174 (302)
                      ++++.-++.+
T Consensus        86 ~~~a~~Ly~~   95 (143)
T PF00637_consen   86 YEEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            4444444443

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.03  E-value=2.7  Score=37.80  Aligned_cols=180  Identities=11%  Similarity=0.129  Sum_probs=116.7

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT--VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE  158 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  158 (302)
                      ....-+....+...++.|+.+-+.   .+..++  ........+.+.+.|++++|...|-+-+.. +.|     ..++.-
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~k  406 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKK  406 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHH
Confidence            344566667777777777766544   332222  122334445556889999999888776643 222     245666


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      |...........+++.+.+.|.  .+...-+.|+.+|.+.++.+.-.++.+... .|.-  ..-....+..+.+.+-.++
T Consensus       407 fLdaq~IknLt~YLe~L~~~gl--a~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGL--ANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHccc--ccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            7777778888889999999995  566667889999999999999888877665 2221  1123456666777777777


Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          239 ACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       239 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      |..+..+...     +......   .+-..+++++|.++++.+.
T Consensus       482 a~~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhcCC
Confidence            7776665432     2222222   2445667777777776653

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.87  E-value=0.26  Score=24.23  Aligned_cols=27  Identities=22%  Similarity=0.412  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +|..+..+|...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455555666666666666666666554

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 ....

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.87  E-value=2  Score=31.99  Aligned_cols=201  Identities=13%  Similarity=0.052  Sum_probs=143.3

Q ss_pred             HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           34 VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-GIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        34 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      ...+......+..          .+.+..+...+...... ........+......+...++...+...+.........+
T Consensus        59 ~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (291)
T COG0457          59 AGLLLLLALALLK----------LGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP  128 (291)
T ss_pred             hHHHHHHHHHHHH----------cccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc
Confidence            3444555555555          56667777777776642 234456677777888888888999999999988765443


Q ss_pred             CHHHHHHHHH-HHhccCCHHHHHHHHHHHHHCCC--CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC-CHHHH
Q 022131          113 TVATYSSVVK-CLCSCGRIEDAEELLGEMVRNGV--CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP-NMHSY  188 (302)
Q Consensus       113 ~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~  188 (302)
                       ......... .+...|+++.|...+++......  ......+......+...++.+.+...+.......  +. ....+
T Consensus       129 -~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~  205 (291)
T COG0457         129 -DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN--PDDDAEAL  205 (291)
T ss_pred             -chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC--cccchHHH
Confidence             222333333 78899999999999999866321  1234444455555678889999999999999885  34 47788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          189 NILIGMFMALNRMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ..+...+...++.+.+...+......  .|+ ...+..+...+...+..+.+...+.+....
T Consensus       206 ~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         206 LNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888999999999999999998875  333 445555555555777899999999888764

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.79  E-value=1.9  Score=34.05  Aligned_cols=47  Identities=17%  Similarity=0.270  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          201 MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      +++++.++..=++.|+-||..+++.+|+.+.+.+++.+|.++.-.|.
T Consensus       116 pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  116 PQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             hHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            34444444444444455555555555555555555555444444443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=93.73  E-value=3.3  Score=34.07  Aligned_cols=153  Identities=8%  Similarity=-0.044  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHH-------------HHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVAT-------------YSSVVKC  123 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~ll~~  123 (302)
                      .++.++|.+.--...+.+ ..+....-.-..++.-.++.+.+...|++.+..+  |+...             +..-.+-
T Consensus       182 ~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~  258 (486)
T KOG0550|consen  182 LGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGND  258 (486)
T ss_pred             cccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhh
Confidence            566666666655555543 1123222222233445677888888888887764  33222             1222333


Q ss_pred             HhccCCHHHHHHHHHHHHHC---CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC
Q 022131          124 LCSCGRIEDAEELLGEMVRN---GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR  200 (302)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (302)
                      ..+.|++..|.+.|.+.+..   ...|+...|.....+..+.|+..+|+.--.+.....  +.-...+..-..++.-.++
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID--SSYIKALLRRANCHLALEK  336 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHHHHHHHH
Confidence            56789999999999998865   334556667667777788999999988877777553  1222333444456667788


Q ss_pred             HHHHHHHHHHHHhC
Q 022131          201 MDMVREIWNDVKGS  214 (302)
Q Consensus       201 ~~~a~~~~~~~~~~  214 (302)
                      |++|.+-++...+.
T Consensus       337 ~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999988887765

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.71  E-value=1.6  Score=30.22  Aligned_cols=54  Identities=6%  Similarity=-0.063  Sum_probs=24.2

Q ss_pred             HccCCchHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          160 RGRKDANGAMKLYRQMKEDGLC-VPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .+.|++++|.+.|+.+...--. +-....-..++.+|.+.+++++|...+++.++
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3445555555555555443200 11223334444455555555555555555444

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.64  E-value=4  Score=34.69  Aligned_cols=96  Identities=13%  Similarity=0.162  Sum_probs=42.9

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      |....-+++..+.+...+.-+..+-.+|...|  .+...+..++.+|..+ ..++-..+|+++.+..+ .|...-..+..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHH
Confidence            33444445555555555555555555555443  2344455555555554 33445555555554433 12222222222


Q ss_pred             HHHccCCchHHHHHHHHHHhC
Q 022131          158 EYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .| ..++.+.+..+|..+...
T Consensus       141 ~y-Ekik~sk~a~~f~Ka~yr  160 (711)
T COG1747         141 KY-EKIKKSKAAEFFGKALYR  160 (711)
T ss_pred             HH-HHhchhhHHHHHHHHHHH
Confidence            22 224445555555544443

>PRK11906 transcriptional regulator; Provisional

Probab=93.62  E-value=3.8  Score=34.39  Aligned_cols=137  Identities=12%  Similarity=0.084  Sum_probs=74.3

Q ss_pred             HHH--HHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-CCCCC-HHHHHHHHHHHHh---------cCCchhHHHH
Q 022131           35 VTY--NVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-GIEPD-VTSFSIVLHVYSR---------AHQPQLSLDK  101 (302)
Q Consensus        35 ~~~--~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~-~~~~~~ll~~~~~---------~~~~~~a~~~  101 (302)
                      ..|  ...+.+.....+..     ....+.|+.+|.+.... ...|+ ...|..+..++..         ..+..+|.++
T Consensus       252 ~a~~~d~ylrg~~~~~~~t-----~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~  326 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFT-----PESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALEL  326 (458)
T ss_pred             cchhhHHHHHHHHHhhccC-----HHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHH
Confidence            455  55555555422222     45667788888888722 12333 3344444333322         1123345555


Q ss_pred             HHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhC
Q 022131          102 LNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      -+...+.+ +.|......+..+..-.++++.|..+|++....++ -...+|......+.-.|+.++|.+.+++..+.
T Consensus       327 A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~P-n~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        327 LDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHST-DIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCC-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            55555555 23666666666666666667777777777666532 23444444445555666777777777665554

>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=93.57  E-value=1.1  Score=33.03  Aligned_cols=79  Identities=15%  Similarity=0.059  Sum_probs=62.0

Q ss_pred             HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC---CCCCChhhHHHHHHHHHccCCc
Q 022131           89 YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN---GVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      ..+.|+ +.|.+.|-.+...+.--++.....+...|. ..+.+++..++.+..+.   +-.+|+..+..|+..+.+.+++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            445555 788888888888776556666666666666 57899999999888764   3367899999999999999999


Q ss_pred             hHHH
Q 022131          166 NGAM  169 (302)
Q Consensus       166 ~~a~  169 (302)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8874

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=93.18  E-value=2.3  Score=30.64  Aligned_cols=120  Identities=13%  Similarity=0.148  Sum_probs=69.1

Q ss_pred             cchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcC
Q 022131           15 IDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD-VTSFSIVLHVYSRAH   93 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~   93 (302)
                      |+.|.+.++.-...+ +.|...++.--.++.....+.....-...+++|+.-|++....  .|+ ..++..+..++...+
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I--~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKI--NPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHHHH
Confidence            455666666543332 5566666666666655444433322246678888888888876  444 356666666665533


Q ss_pred             ----C-------chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 022131           94 ----Q-------PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV  145 (302)
Q Consensus        94 ----~-------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  145 (302)
                          +       +++|...|++..+.  .|+...|+.-+....      +|-++..++.+++.
T Consensus        84 ~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~------kap~lh~e~~~~~~  138 (186)
T PF06552_consen   84 FLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA------KAPELHMEIHKQGL  138 (186)
T ss_dssp             HH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH------THHHHHHHHHHSSS
T ss_pred             hhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH------hhHHHHHHHHHHHh
Confidence                2       34455555555554  688888888887753      46667777766643

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.08  E-value=0.16  Score=25.23  Aligned_cols=22  Identities=18%  Similarity=0.389  Sum_probs=9.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHH
Q 022131          183 PNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      -+...|+.+...+...|++++|
T Consensus        11 ~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   11 NNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCHHHHHHHHHHHHHCcCHHhh
Confidence            3444444444444444444444

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.01  E-value=0.42  Score=23.30  Aligned_cols=27  Identities=22%  Similarity=0.432  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .+..+..++...|++++|++.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344555566666666666666666554

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.99  E-value=1.6  Score=28.11  Aligned_cols=59  Identities=14%  Similarity=0.137  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHH
Q 022131          203 MVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLY  262 (302)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  262 (302)
                      +..+-++.+......|++....+.+.+|.+.+++..|+++++-.+.+ ..+....|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~l   86 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYIL   86 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHH
Confidence            44445555555556666666666666666666666666666665543 222222455444

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 ....

>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=92.85  E-value=3.9  Score=32.28  Aligned_cols=220  Identities=8%  Similarity=0.049  Sum_probs=124.5

Q ss_pred             HHHHHHHHHHHHHHHhcC--CCCCH------HHHHHHHHHHHhcCCchhHHHHHHHHHhc--------CCCcC-----HH
Q 022131           57 EKTIRNAEKVFDEMRVRG--IEPDV------TSFSIVLHVYSRAHQPQLSLDKLNFMKEK--------GICPT-----VA  115 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~-----~~  115 (302)
                      .|+++.|..++.+.....  ..|+.      ..|+.-...+.+..+++.|...+++..+.        ...|+     ..
T Consensus         6 ~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~   85 (278)
T PF08631_consen    6 QGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLS   85 (278)
T ss_pred             hCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHH
Confidence            678888888888887643  22332      13343333343333888888777766443        12223     34


Q ss_pred             HHHHHHHHHhccCCHH---HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIE---DAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      ++..++.+|...+..+   +|..+++.+..... -.+..+..-++.+.+.++.+.+.+++.+|...-  .-....+..++
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~-~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~--~~~e~~~~~~l  162 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYG-NKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV--DHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCC-CCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc--ccccchHHHHH
Confidence            5677888888877654   56666666654422 235566666777778899999999999999874  21334455555


Q ss_pred             HHH---HhcCCHHHHHHHHHHHHhCCCCCCHH-HHHH-HHHHH---HHcCC------HHHHHHHHHHHHHC-CCCCchhh
Q 022131          193 GMF---MALNRMDMVREIWNDVKGSGLGPDLD-SYTM-LIHGL---CEKQK------WKEACQYFVEMIEK-GLLPQKVT  257 (302)
Q Consensus       193 ~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-li~~~---~~~g~------~~~a~~~~~~~~~~-~~~p~~~~  257 (302)
                      ..+   .... ...+...+..+....+.|... .... ++...   .+.++      .+...+++....+. +.+.+..+
T Consensus       163 ~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~  241 (278)
T PF08631_consen  163 HHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEA  241 (278)
T ss_pred             HHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            444   3333 345666666555444555553 1111 11111   11111      44444555543322 23334333


Q ss_pred             HH---HHH----HHHhhcchHHHHHHHHHh
Q 022131          258 FE---TLY----RGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       258 ~~---~l~----~~~~~~g~~~~a~~~~~~  280 (302)
                      -.   +++    ..+.+.++++.|.++++-
T Consensus       242 ~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  242 ASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            22   222    445678899999999874

It is also involved in sporulation [].

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.82  E-value=2.5  Score=29.92  Aligned_cols=114  Identities=22%  Similarity=0.212  Sum_probs=64.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCChhhH-HHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCPSAETY-NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      ++..-.+.++.+++..+++.+.-.  .|..... ..-...+...|++.+|.++|+++.+..   |.......|+..|...
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~---~~~p~~kALlA~CL~~   90 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA---PGFPYAKALLALCLYA   90 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC---CCChHHHHHHHHHHHH
Confidence            334445778999999999998875  3443322 222345688999999999999988774   4444444555544443


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          199 NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      ..-..=...-+++.+.+..|+.   ..++..+....+...|..
T Consensus        91 ~~D~~Wr~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   91 LGDPSWRRYADEVLESGADPDA---RALVRALLARADLEPAHE  130 (160)
T ss_pred             cCChHHHHHHHHHHhcCCChHH---HHHHHHHHHhccccchhh
Confidence            3222222333445554333332   234444444444444433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.56  E-value=3.7  Score=31.32  Aligned_cols=57  Identities=12%  Similarity=0.125  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGS---GLGPDLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      .+...|-.+.-..++..|...++.-.+.   .-+-+..+...|+.+| ..|+.+++..++.
T Consensus       192 ~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  192 AYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            3455555666777888898888874442   2233567788888876 4577777766553

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.29  E-value=0.53  Score=24.24  Aligned_cols=28  Identities=18%  Similarity=0.319  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          221 DSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       221 ~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .+++.+...|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4667777777777777777777777653

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.20  E-value=5.4  Score=32.38  Aligned_cols=227  Identities=10%  Similarity=0.026  Sum_probs=128.1

Q ss_pred             hcCCcchHHHHHHHHHhC--CCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHH----HHHHHhcC-CCCCHHHHH
Q 022131           11 KINRIDMAERFLGEMIER--GVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKV----FDEMRVRG-IEPDVTSFS   83 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~----~~~~~~~~-~~~~~~~~~   83 (302)
                      ...+.++|+..|..-+.+  +..-.-.++..+..+.++          .+.+++++..    .+-..+.. -..-...|-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~----------~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~l   87 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSE----------MGRYKEMLKFAVSQIDTARELEDSDFLLEAYL   87 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhh----------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456677777777766543  111122344455555555          4554444322    22221110 001123455


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhc-CCCc---CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-----CCCChhhHHH
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEK-GICP---TVATYSSVVKCLCSCGRIEDAEELLGEMVRNG-----VCPSAETYNC  154 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~  154 (302)
                      .+.+++-+..++.+++.+-..-... |..|   ......++..++...+.++++++.|+...+..     .......+..
T Consensus        88 nlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~  167 (518)
T KOG1941|consen   88 NLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVS  167 (518)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhh
Confidence            5666666666667776665554433 2111   12344557777888888999999998876531     1123457788


Q ss_pred             HHHHHHccCCchHHHHHHHHHHhCCC--CCCCH-HHH-----HHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-CHH
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKEDGL--CVPNM-HSY-----NILIGMFMALNRMDMVREIWNDVKG----SGLGP-DLD  221 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~-~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~  221 (302)
                      +-..|.+..+++++.-+.....+.-.  .-.|. .-|     ..+.-++-..|....|.+..++..+    .|-.+ ...
T Consensus       168 Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~ar  247 (518)
T KOG1941|consen  168 LGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQAR  247 (518)
T ss_pred             HHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHH
Confidence            88888888999988777665543210  01121 112     2233455567777777777766543    33222 233


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      ....+.+.|...|+.+.|+.-|+...
T Consensus       248 c~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  248 CLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            44566778888999998888777653

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.99  E-value=4  Score=34.43  Aligned_cols=124  Identities=12%  Similarity=0.107  Sum_probs=77.9

Q ss_pred             HccCCchHHHH-HHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          160 RGRKDANGAMK-LYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       160 ~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      ...|+.-.|-+ ++..+..... .|+.....  ...+...|+++.+.+.+....+. +.....+..++++.....|+++.
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~-~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQ-DPVLIQLR--SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCC-CchhhHHH--HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHH
Confidence            34555555544 4444444332 44444333  33456778888888888766553 34456677888888888889999


Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCc
Q 022131          239 ACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITF  288 (302)
Q Consensus       239 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  288 (302)
                      |..+...|....+. ++.......-.....|-++++...++++...+.+-
T Consensus       376 a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~  424 (831)
T PRK15180        376 ALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPET  424 (831)
T ss_pred             HHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChh
Confidence            99988888766543 33333333344456677888888888876544443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.96  E-value=0.25  Score=24.54  Aligned_cols=20  Identities=20%  Similarity=0.381  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHhccCCHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a  133 (302)
                      ...|+.+...|...|++++|
T Consensus        13 ~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHhh
Confidence            33444444444444444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.84  E-value=2.3  Score=27.36  Aligned_cols=59  Identities=14%  Similarity=0.181  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHH
Q 022131           62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVV  121 (302)
Q Consensus        62 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  121 (302)
                      +..+-++.+...+..|++.+....+++|.+.+++..|+++|+-++..-- .....|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~-~~~~~Y~~~l   86 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG-NKKEIYPYIL   86 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT-T-TTHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc-ChHHHHHHHH
Confidence            4556666666677777777777777888778888888887777765421 1222555554

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 ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.41  E-value=0.63  Score=23.94  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131          115 ATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus       115 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      .+++.+...|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3556666666666666666666666543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=91.18  E-value=11  Score=33.76  Aligned_cols=195  Identities=13%  Similarity=0.111  Sum_probs=103.1

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHH-hcCCCcC--HHHHHHHHHHHh-ccCCHHHHHHHHHHHHHCCCCCChh---
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMK-EKGICPT--VATYSSVVKCLC-SCGRIEDAEELLGEMVRNGVCPSAE---  150 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~--~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~---  150 (302)
                      +...|..||..         |++.++.+. +..++|.  ..++-.+...+. ...+++.|+..+++.....-.++..   
T Consensus        29 ~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k   99 (608)
T PF10345_consen   29 QLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLK   99 (608)
T ss_pred             hHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHH
Confidence            45566666543         344555555 3233332  233444555554 5667888888888765432222211   


Q ss_pred             --hHHHHHHHHHccCCchHHHHHHHHHHhCCCC---CCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHhCC---CCCCHH
Q 022131          151 --TYNCFFKEYRGRKDANGAMKLYRQMKEDGLC---VPNMHSYNIL-IGMFMALNRMDMVREIWNDVKGSG---LGPDLD  221 (302)
Q Consensus       151 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~  221 (302)
                        .-..+++.+.+.+... |...+++..+.-..   .+-...|..+ +..+...++...|.+.++.+....   ..|...
T Consensus       100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~  178 (608)
T PF10345_consen  100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF  178 (608)
T ss_pred             HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence              2234455666665555 77777776554320   1222222333 223333478888888887766532   234445


Q ss_pred             HHHHHHHHHH--HcCCHHHHHHHHHHHHHCC--C-------CCchhhHHHHHHHHh--hcchHHHHHHHHHhcc
Q 022131          222 SYTMLIHGLC--EKQKWKEACQYFVEMIEKG--L-------LPQKVTFETLYRGLI--QSDMLRTWRRLKKKLD  282 (302)
Q Consensus       222 ~~~~li~~~~--~~g~~~~a~~~~~~~~~~~--~-------~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~  282 (302)
                      ++-.++.+..  +.+..+++.+.++++....  +       .|-..+|..+++.+.  ..|+.+.+.+.++++.
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555553  3455677777777764321  1       234456666666444  5677666666655443

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.09  E-value=6  Score=30.71  Aligned_cols=153  Identities=10%  Similarity=0.136  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCCchhHHHHHHHHHhc---C--CCcCHHHHHHHHHHHhccCCH
Q 022131           59 TIRNAEKVFDEMRVRGIEPDV---TSFSIVLHVYSRAHQPQLSLDKLNFMKEK---G--ICPTVATYSSVVKCLCSCGRI  130 (302)
Q Consensus        59 ~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~ll~~~~~~~~~  130 (302)
                      .+++|+.-|++..+.......   .....++....+.+++++.+..+.++...   .  -..+....++++...+...+.
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m  121 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNM  121 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhh
Confidence            455666666665553211111   23344555666666666666665555321   0  112334455555555544444


Q ss_pred             HHHHHHHHHHHHC-CCCCChh----hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC-----------HHHHHHHHHH
Q 022131          131 EDAEELLGEMVRN-GVCPSAE----TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN-----------MHSYNILIGM  194 (302)
Q Consensus       131 ~~a~~~~~~~~~~-~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~l~~~  194 (302)
                      +-....++.-.+. .-..+..    |-..+...|...+++.+...++.++..+.. ..+           ...|..=|+.
T Consensus       122 ~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq-~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  122 DLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQ-TEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             HHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhc-cccCchhhhccchhhhhHhhHhhh
Confidence            4444444332211 0001222    224455555555555555556555554432 111           1234444555


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 022131          195 FMALNRMDMVREIWNDVK  212 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~  212 (302)
                      |....+-.....++++..
T Consensus       201 YT~qKnNKkLK~lYeqal  218 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQAL  218 (440)
T ss_pred             hhhhcccHHHHHHHHHHH
Confidence            555555555555555433

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.08  E-value=8.4  Score=32.36  Aligned_cols=259  Identities=12%  Similarity=0.140  Sum_probs=139.7

Q ss_pred             HHhcCCcchHHHHHHHHHhCCCcccH------HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHH
Q 022131            9 WCKINRIDMAERFLGEMIERGVEPNV------VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSF   82 (302)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (302)
                      +.+.+++.+|.++|.+.-+.. ..++      ..-+.++++|..           .+.+.....+....+..  | ...|
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-----------~nld~Me~~l~~l~~~~--~-~s~~   80 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-----------NNLDLMEKQLMELRQQF--G-KSAY   80 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-----------hhHHHHHHHHHHHHHhc--C-CchH
Confidence            457889999999999987652 2222      223456666653           45555555555555542  2 2222


Q ss_pred             HHHHH--HHHhcCCchhHHHHHHHHHhc--CCCc------------CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-
Q 022131           83 SIVLH--VYSRAHQPQLSLDKLNFMKEK--GICP------------TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV-  145 (302)
Q Consensus        83 ~~ll~--~~~~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-  145 (302)
                      -.+..  .+.+.+++.+|.+.+....+.  +..|            |-..=+..+.++...|++.++..+++++...=+ 
T Consensus        81 l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llk  160 (549)
T PF07079_consen   81 LPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLK  160 (549)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhh
Confidence            22222  244678899999988877655  2221            112224556677889999999999998876533 


Q ss_pred             ---CCChhhHHHHHHHHHccC--------Cc-------hHHHHHHHHHHhCCC-----CCCCHHHHHHHHHHHHhc--CC
Q 022131          146 ---CPSAETYNCFFKEYRGRK--------DA-------NGAMKLYRQMKEDGL-----CVPNMHSYNILIGMFMAL--NR  200 (302)
Q Consensus       146 ---~~~~~~~~~l~~~~~~~~--------~~-------~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~--~~  200 (302)
                         .-+..+|+.++-.+.+.-        ..       +.+.-...++.....     ..|....+..++....-.  .+
T Consensus       161 rE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~  240 (549)
T PF07079_consen  161 RECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKER  240 (549)
T ss_pred             hhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhh
Confidence               367888888665554321        11       112222222221110     123333333333332221  11


Q ss_pred             HHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC----chhhHHHHHHHHhhcchHHHHH
Q 022131          201 MDMVREIWNDVKGSGLGPDLD-SYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP----QKVTFETLYRGLIQSDMLRTWR  275 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~a~  275 (302)
                      ..--.++++.-...-+.|+-. ....++..+..  +.+++..+.+.+....+.+    =..+|..++....+.++..+|.
T Consensus       241 l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~  318 (549)
T PF07079_consen  241 LPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAK  318 (549)
T ss_pred             ccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            112222222223333445432 22333333333  5666666666554432221    2357888888899999999999


Q ss_pred             HHHHhcccc
Q 022131          276 RLKKKLDEE  284 (302)
Q Consensus       276 ~~~~~~~~~  284 (302)
                      +.+..+.--
T Consensus       319 q~l~lL~~l  327 (549)
T PF07079_consen  319 QYLALLKIL  327 (549)
T ss_pred             HHHHHHHhc
Confidence            988776543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.07  E-value=0.082  Score=36.83  Aligned_cols=121  Identities=10%  Similarity=0.134  Sum_probs=72.8

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK  233 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  233 (302)
                      .++..+.+.+.+.....+++.+...+. ..+....+.++..|++.+..+...++++..       +..-...++..|.+.
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~   83 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENK-ENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKH   83 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTST-C-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhccc-ccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhc
Confidence            456667777888888888888886654 456777788888888887777777776611       112234567777778


Q ss_pred             CCHHHHHHHHHHHHHCC--CC--CchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          234 QKWKEACQYFVEMIEKG--LL--PQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       234 g~~~~a~~~~~~~~~~~--~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      |.++++.-++.++....  +.  -....+...+..+.+.++.+-+..+.+...
T Consensus        84 ~l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l  136 (143)
T PF00637_consen   84 GLYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCL  136 (143)
T ss_dssp             TSHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            88888888777653321  11  122333444455555555544444444443

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.98  E-value=2.8  Score=26.70  Aligned_cols=32  Identities=13%  Similarity=0.274  Sum_probs=12.6

Q ss_pred             CCCCChhhHHHHHHHHHccCCchHHHHHHHHH
Q 022131          144 GVCPSAETYNCFFKEYRGRKDANGAMKLYRQM  175 (302)
Q Consensus       144 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  175 (302)
                      .+.|++....+.+++|.+.+++..|.++++.+
T Consensus        37 DlVP~P~ii~aaLrAcRRvND~alAVR~lE~v   68 (103)
T cd00923          37 DLVPEPKVIEAALRACRRVNDFALAVRILEAI   68 (103)
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33333333333444444444444444433333

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.96  E-value=4  Score=28.46  Aligned_cols=52  Identities=15%  Similarity=0.112  Sum_probs=32.6

Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMH-SYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ...++++++..++..+.-..   |+.. .-..-...+...|+|++|.++|+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLr---P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLR---PNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhC---CCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            35677777777777776653   3322 2222233456778888888888877765

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.87  E-value=9.5  Score=32.62  Aligned_cols=181  Identities=9%  Similarity=-0.000  Sum_probs=124.2

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI  110 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  110 (302)
                      +.|.....+++..+..          ...++-.+.+..+|...|  -+...+-.++.+|... ..+.-..+|+++.+..+
T Consensus        63 ~l~d~~l~~~~~~f~~----------n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df  129 (711)
T COG1747          63 LLDDSCLVTLLTIFGD----------NHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF  129 (711)
T ss_pred             cccchHHHHHHHHhcc----------chHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc
Confidence            3455555666666666          667777888888888874  3678889999999988 66888999999998876


Q ss_pred             CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-----CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCH
Q 022131          111 CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-----PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNM  185 (302)
Q Consensus       111 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  185 (302)
                      . |...-..|...|-+ ++.+.+...|.++..+=++     .-...|..+...  -..+.+..+.+...+........-.
T Consensus       130 n-Dvv~~ReLa~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~  205 (711)
T COG1747         130 N-DVVIGRELADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGS  205 (711)
T ss_pred             h-hHHHHHHHHHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHH
Confidence            5 55555666666666 8888888888888765331     112345555432  2456677778877777665434445


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      ..+.-+-.-|....++++|.+++..+.+.. ..|...-..++.-
T Consensus       206 Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~  248 (711)
T COG1747         206 VLMQDVYKKYSENENWTEAIRILKHILEHD-EKDVWARKEIIEN  248 (711)
T ss_pred             HHHHHHHHHhccccCHHHHHHHHHHHhhhc-chhhhHHHHHHHH
Confidence            556666677888899999999999877763 2344444444443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=90.84  E-value=10  Score=32.92  Aligned_cols=185  Identities=14%  Similarity=0.022  Sum_probs=114.7

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      +..+|+.-+..-..          .|+++.+.-+|++..-.- ..=...|-..++.....|+.+.|..++....+--.+-
T Consensus       296 ql~nw~~yLdf~i~----------~g~~~~~~~l~ercli~c-A~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~  364 (577)
T KOG1258|consen  296 QLKNWRYYLDFEIT----------LGDFSRVFILFERCLIPC-ALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKK  364 (577)
T ss_pred             HHHHHHHHhhhhhh----------cccHHHHHHHHHHHHhHH-hhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCC
Confidence            45667777776666          777788888887776321 1123455555566666688888888888776665444


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHccCCchHHH---HHHHHHHhCCCCCCCHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSA-ETYNCFFKEYRGRKDANGAM---KLYRQMKEDGLCVPNMHSY  188 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~  188 (302)
                      .+.+.-.-....-..|++..|..+++.+.+.-  |+. ..-..-+....+.|..+.+.   .++......   .-+....
T Consensus       365 ~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~---~~~~~i~  439 (577)
T KOG1258|consen  365 TPIIHLLEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG---KENNGIL  439 (577)
T ss_pred             CcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc---ccCcchh
Confidence            44443333334455689999999999988763  332 22233344456777777766   333333322   2233333


Q ss_pred             HHHHHH-----HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 022131          189 NILIGM-----FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ  234 (302)
Q Consensus       189 ~~l~~~-----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  234 (302)
                      ..+.--     +.-.++.+.|..++.++.+. .+++...|..++......+
T Consensus       440 ~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  440 EKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            333222     22357888999999998886 6777788888887766554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.50  E-value=0.91  Score=22.16  Aligned_cols=27  Identities=19%  Similarity=0.262  Sum_probs=12.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      +|..+..+|...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344444455555555555555554444

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.63  E-value=8.6  Score=30.22  Aligned_cols=136  Identities=11%  Similarity=0.119  Sum_probs=80.1

Q ss_pred             chhHHHHHHHHHh-cCCCcCHHHHHHHHHHHhc-cC-CHHHHHHHHHHHHH-CCCCCChhhHHHHHHHHHccCCchHHHH
Q 022131           95 PQLSLDKLNFMKE-KGICPTVATYSSVVKCLCS-CG-RIEDAEELLGEMVR-NGVCPSAETYNCFFKEYRGRKDANGAMK  170 (302)
Q Consensus        95 ~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~  170 (302)
                      +.+|+++|+.... ..+--|..+...+++.... .+ ....-.++.+-+.. .+..++..+...++..++..+++.+..+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            3455555552211 1233456666666665554 22 22222233333332 2345677777777888888888888888


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-----HHhCCCCCCHHHHHHHHHHH
Q 022131          171 LYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWND-----VKGSGLGPDLDSYTMLIHGL  230 (302)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~li~~~  230 (302)
                      ++...........|...|..+|......|+..-...+.++     +++.++..+...-..+-+.+
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            8777766633356777788888888888887777777665     34456666665555554444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.62  E-value=10  Score=30.95  Aligned_cols=66  Identities=6%  Similarity=-0.062  Sum_probs=47.6

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC---chhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          218 PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP---QKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       218 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ....+|..++..+.+.|+++.|...+.++...+..+   ++.....-.+.+...|+..+|...++...+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455678888888889999999999888887643211   334444456677788888888888877666

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=89.48  E-value=7.4  Score=29.23  Aligned_cols=180  Identities=13%  Similarity=0.097  Sum_probs=102.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPD-VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEE  135 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  135 (302)
                      .|-+.-|.--|.+....  .|+ +.+||.|.-.+...|+++.|.+.|+...+.+..-+-...|.-|. +.-.|++.-|.+
T Consensus        78 lGL~~LAR~DftQaLai--~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~  154 (297)
T COG4785          78 LGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQD  154 (297)
T ss_pred             hhHHHHHhhhhhhhhhc--CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHH
Confidence            34444455555555543  444 67899999889999999999999999988865434334444343 334588888887


Q ss_pred             HHHHHHHCCC-CCChhhHHHHHHHHHccCCchHHHHH-HHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          136 LLGEMVRNGV-CPSAETYNCFFKEYRGRKDANGAMKL-YRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       136 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      =+.+.-+.+. .|-...|.-+.   -..-++.+|..- .++..+     .|..-|...|-.+.- |+. ....+++.+..
T Consensus       155 d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~-----~d~e~WG~~iV~~yL-gki-S~e~l~~~~~a  224 (297)
T COG4785         155 DLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEK-----SDKEQWGWNIVEFYL-GKI-SEETLMERLKA  224 (297)
T ss_pred             HHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHh-----ccHhhhhHHHHHHHH-hhc-cHHHHHHHHHh
Confidence            7766665532 12223333222   233345555433 333332     233334333322221 111 11223333332


Q ss_pred             CCCCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 022131          214 SGLGPD-------LDSYTMLIHGLCEKQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       214 ~~~~~~-------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  250 (302)
                      . -.-+       ..||--+...+...|+.++|..+|+-.+..+
T Consensus       225 ~-a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         225 D-ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             h-ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            2 1111       3577778888889999999999999887653

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=89.22  E-value=13  Score=31.62  Aligned_cols=87  Identities=7%  Similarity=-0.031  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .|+++.+.+.+...... +.....+...+++...+.|+++.|..+-+.|....++ ++..........-..|-++++.-.
T Consensus       336 lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~  413 (831)
T PRK15180        336 LGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHY  413 (831)
T ss_pred             hhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHH
Confidence            67777777776665443 3345667777888888888888888888888776655 555544444444556677788888


Q ss_pred             HHHHHHCCC
Q 022131          137 LGEMVRNGV  145 (302)
Q Consensus       137 ~~~~~~~~~  145 (302)
                      |+++...+.
T Consensus       414 wk~~~~~~~  422 (831)
T PRK15180        414 WKRVLLLNP  422 (831)
T ss_pred             HHHHhccCC
Confidence            877766543

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.19  E-value=1  Score=21.66  Aligned_cols=23  Identities=26%  Similarity=0.476  Sum_probs=11.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Q 022131          226 LIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +..++.+.|++++|.+.|+++++
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH
Confidence            34444455555555555555544

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.11  E-value=5.2  Score=29.99  Aligned_cols=77  Identities=13%  Similarity=0.042  Sum_probs=59.8

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHH
Q 022131          151 TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--GLGPDLDSYTMLIH  228 (302)
Q Consensus       151 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~  228 (302)
                      |.+..++.+.+.+...+++...++-.+..  +.|..+-..+++.++-.|+|++|..-++-.-..  ...+-..+|..+|.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak--Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK--PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC--CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            44556677888899999999998888885  567777788999999999999999888776653  23345677777776


Q ss_pred             H
Q 022131          229 G  229 (302)
Q Consensus       229 ~  229 (302)
                      +
T Consensus        81 ~   81 (273)
T COG4455          81 C   81 (273)
T ss_pred             H
Confidence            5

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=88.78  E-value=1.7  Score=21.06  Aligned_cols=27  Identities=26%  Similarity=0.345  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +|..+...|...|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456666777777777777777777655

...

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.77  E-value=1.6  Score=21.12  Aligned_cols=27  Identities=15%  Similarity=0.240  Sum_probs=15.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      .+..+...+...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344555556666666666666665554

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 ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.73  E-value=4.9  Score=30.13  Aligned_cols=78  Identities=17%  Similarity=0.078  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC-CCCCHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL-CVPNMHSYNILIGM  194 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~  194 (302)
                      |.+..++.+.+.+.+.+++...++-.+... -+...-..+++.++-.|++++|..-++-.-+..- ..+...+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakP-tda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            445567778888999999999888777643 4677788899999999999999877766554420 13345566666654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=88.65  E-value=12  Score=30.55  Aligned_cols=119  Identities=20%  Similarity=0.226  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHHHHHhcC-----CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCCcCHH-HHH-----HHH
Q 022131           57 EKTIRNAEKVFDEMRVRG-----IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GICPTVA-TYS-----SVV  121 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~-~~~-----~ll  121 (302)
                      .+.++++++.|+.....-     .-....++..|...|.+..|+++|.-+..+..+.    ++. |.. -|.     .+.
T Consensus       135 ls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhma  213 (518)
T KOG1941|consen  135 LSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMA  213 (518)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHH
Confidence            677888888888776521     1123457888999999999999988776655332    322 222 122     233


Q ss_pred             HHHhccCCHHHHHHHHHHHHH----CCCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHH
Q 022131          122 KCLCSCGRIEDAEELLGEMVR----NGVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMK  176 (302)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  176 (302)
                      -++...|++.+|.+.-++..+    .|-.+ .......+.+.|...|+.+.++.-|++..
T Consensus       214 ValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  214 VALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            456677888888777776544    33322 23445567778889999999888777654

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=88.55  E-value=10  Score=29.65  Aligned_cols=81  Identities=15%  Similarity=0.175  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc-----cCCHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS-----CGRIE  131 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-----~~~~~  131 (302)
                      .++|.+++...-+..+.--+-.......-|-.|.+.+++..+.++-....+..-.-+...|.+++..|..     .|.++
T Consensus        96 mnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~  175 (309)
T PF07163_consen   96 MNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFS  175 (309)
T ss_pred             HhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHH
Confidence            5555655555444443221122333344444566666666666666655544222233335555555443     46666


Q ss_pred             HHHHHH
Q 022131          132 DAEELL  137 (302)
Q Consensus       132 ~a~~~~  137 (302)
                      +|+++.
T Consensus       176 eAeelv  181 (309)
T PF07163_consen  176 EAEELV  181 (309)
T ss_pred             HHHHHH
Confidence            666655

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=88.32  E-value=6.8  Score=27.36  Aligned_cols=52  Identities=13%  Similarity=0.184  Sum_probs=39.3

Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          124 LCSCGRIEDAEELLGEMVRNGVCPS---AETYNCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      -...++.+++..+++.|.-.  .|+   ..++..  ..+...|++.+|.++|+++.+.+
T Consensus        20 aL~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        20 ALRSADPYDAQAMLDALRVL--RPNLKELDMFDG--WLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--CCCccccchhHH--HHHHHcCCHHHHHHHHHhhhccC
Confidence            34578999999999998864  343   334433  44678999999999999998875

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.22  E-value=1.5  Score=23.35  Aligned_cols=27  Identities=26%  Similarity=0.452  Sum_probs=23.3

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCC
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGV   30 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~   30 (302)
                      -|..+|...|+.+.|.+++++....|-
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~~   30 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEGD   30 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC
Confidence            367899999999999999999997643

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.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=88.14  E-value=8.1  Score=28.01  Aligned_cols=98  Identities=14%  Similarity=0.210  Sum_probs=58.8

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhC-----CCcccH-HHHHHHHHHHHhcccCCcch-hhHHHHHHHHHHHHHHHhcCCCC
Q 022131            5 LIYGWCKINRIDMAERFLGEMIER-----GVEPNV-VTYNVLLNGVCRRASLHPSE-RFEKTIRNAEKVFDEMRVRGIEP   77 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~-~~~~~ll~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~~~~   77 (302)
                      .+.-+++..+..++.+++++....     .+.|+- .++..+-.++...+.+.+-. .....+++|...|+...+.  .|
T Consensus        34 ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P  111 (186)
T PF06552_consen   34 ALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DP  111 (186)
T ss_dssp             HHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---T
T ss_pred             HHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CC
Confidence            344455555544555555544332     245554 57777777777766543322 3345678888888888876  78


Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI  110 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  110 (302)
                      +...|+.-+...      .+|-++..++.+.+.
T Consensus       112 ~ne~Y~ksLe~~------~kap~lh~e~~~~~~  138 (186)
T PF06552_consen  112 NNELYRKSLEMA------AKAPELHMEIHKQGL  138 (186)
T ss_dssp             T-HHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             CcHHHHHHHHHH------HhhHHHHHHHHHHHh
Confidence            999999998887      456777777777653

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=87.81  E-value=12  Score=29.50  Aligned_cols=63  Identities=8%  Similarity=0.094  Sum_probs=36.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGS-GLGPDLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      .++..+...++..++..+++..-.++|...... +..-|...|..+|......|+..-...+..
T Consensus       199 ~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  199 SLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             CCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            455555566666666666666666666655443 344455666666666666666554444443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=87.81  E-value=11  Score=29.38  Aligned_cols=90  Identities=8%  Similarity=0.112  Sum_probs=64.2

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh
Q 022131          118 SSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA  197 (302)
Q Consensus       118 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (302)
                      ..=|.+++..+++.++..+.-+.-+.--+..+......|-.|.+.+++..+.++-........ .-+...|..++..|..
T Consensus        87 vvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~-Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   87 VVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPS-NQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcc-cCCchhhHHHHHHHHH
Confidence            445788889999999888766655432223345556666778999999999998888877643 3344457777766664


Q ss_pred             -----cCCHHHHHHHH
Q 022131          198 -----LNRMDMVREIW  208 (302)
Q Consensus       198 -----~~~~~~a~~~~  208 (302)
                           .|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 58999999887

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

>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=87.45  E-value=2.1  Score=20.75  Aligned_cols=27  Identities=22%  Similarity=0.282  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      +|..+...|...|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345555556666666666666665544

...

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.41  E-value=11  Score=32.89  Aligned_cols=152  Identities=11%  Similarity=0.096  Sum_probs=98.0

Q ss_pred             HhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 022131           10 CKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVY   89 (302)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   89 (302)
                      .-.|+++.|..++....+       ..-+.+...+.+          .+..++|+++         .+|...-   ....
T Consensus       597 vmrrd~~~a~~vLp~I~k-------~~rt~va~Fle~----------~g~~e~AL~~---------s~D~d~r---Fela  647 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPK-------EIRTKVAHFLES----------QGMKEQALEL---------STDPDQR---FELA  647 (794)
T ss_pred             hhhccccccccccccCch-------hhhhhHHhHhhh----------ccchHhhhhc---------CCChhhh---hhhh
Confidence            445777777765544431       233444444445          4444444432         3333322   2234


Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHH
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      .+.|+++.|.++..+..      +..-|..|.++....+++..|.+.|.+..+         |..|+-.+...|+.+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            46788888887766542      566799999999999999999988877654         456777788888887777


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          170 KLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      .+-....+.|  +.|.     ..-+|...|+++++.+++..-.
T Consensus       713 ~la~~~~~~g--~~N~-----AF~~~~l~g~~~~C~~lLi~t~  748 (794)
T KOG0276|consen  713 VLASLAKKQG--KNNL-----AFLAYFLSGDYEECLELLISTQ  748 (794)
T ss_pred             HHHHHHHhhc--ccch-----HHHHHHHcCCHHHHHHHHHhcC
Confidence            7777777777  4443     3445567889999888877654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.18  E-value=2.3  Score=22.64  Aligned_cols=21  Identities=19%  Similarity=0.189  Sum_probs=9.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHH
Q 022131          227 IHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~~~  247 (302)
                      ..+|...|+.+.|.+++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHH
Confidence            344444444444444444444

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=86.85  E-value=6.5  Score=26.53  Aligned_cols=43  Identities=14%  Similarity=0.187  Sum_probs=22.7

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHh
Q 022131           65 KVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKE  107 (302)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  107 (302)
                      +-++.+...++.|++......++++.+.+|+..|.++|+-++.
T Consensus        70 kglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   70 KGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3344444445555555555555555555555555555555543

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=86.78  E-value=7.8  Score=34.24  Aligned_cols=81  Identities=15%  Similarity=0.261  Sum_probs=61.2

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhC--CCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIER--GVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      +|..+|...|++.++.++++.+...  |-+.=...+|..++...+.|.++-    ....+.+.+.+++..-   .-|..|
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l----~~~~~~~~~~lq~a~l---n~d~~t  105 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFEL----TDVLSNAKELLQQARL---NGDSLT  105 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccH----HHHHHHHHHHHHHhhc---CCcchH
Confidence            6889999999999999999998765  455556788999999999886643    4455667777776653   347778


Q ss_pred             HHHHHHHHHh
Q 022131           82 FSIVLHVYSR   91 (302)
Q Consensus        82 ~~~ll~~~~~   91 (302)
                      |..|+.+...
T Consensus       106 ~all~~~sln  115 (1117)
T COG5108         106 YALLCQASLN  115 (1117)
T ss_pred             HHHHHHhhcC
Confidence            8877766544

>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=86.32  E-value=4.4  Score=24.70  Aligned_cols=46  Identities=13%  Similarity=0.057  Sum_probs=22.6

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCc--hhhHHHHHHHHhhcchHHHHHHH
Q 022131          232 EKQKWKEACQYFVEMIEKGLLPQ--KVTFETLYRGLIQSDMLRTWRRL  277 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~  277 (302)
                      ..++.++|+..|....+.-..|.  ..++..++.++...|+++++.++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555554322211  13445555566666655555544

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

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=86.23  E-value=1.4  Score=20.11  Aligned_cols=18  Identities=28%  Similarity=0.217  Sum_probs=8.5

Q ss_pred             HHHHHhhcchHHHHHHHH
Q 022131          261 LYRGLIQSDMLRTWRRLK  278 (302)
Q Consensus       261 l~~~~~~~g~~~~a~~~~  278 (302)
                      +..++...|+.++|..++
T Consensus         7 la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    7 LARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            344444445555544443

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=85.32  E-value=27  Score=31.29  Aligned_cols=43  Identities=16%  Similarity=0.152  Sum_probs=31.7

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhc
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRR   47 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~   47 (302)
                      ++|-.|.++|++++|.++..+.... .......+...+..|...
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            4678899999999999999655443 455667788888888774

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=85.26  E-value=25  Score=30.72  Aligned_cols=86  Identities=13%  Similarity=0.097  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH-hcCCchhHHHHHHHHHhc-CCC-cCHHHHHHHHHHHhccCCHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS-RAHQPQLSLDKLNFMKEK-GIC-PTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      .|..+.+.++|++-.+. ++.+...|...+.-+. ..|+.+...+.|+..... |.. .+...|...|..-...+++...
T Consensus        92 lg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v  170 (577)
T KOG1258|consen   92 LGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRV  170 (577)
T ss_pred             hhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHH
Confidence            56666677777776653 4455555555544333 345555566666665543 211 1344566666666666667777


Q ss_pred             HHHHHHHHHC
Q 022131          134 EELLGEMVRN  143 (302)
Q Consensus       134 ~~~~~~~~~~  143 (302)
                      ..+++++++.
T Consensus       171 ~~iyeRilei  180 (577)
T KOG1258|consen  171 ANIYERILEI  180 (577)
T ss_pred             HHHHHHHHhh
Confidence            7776666653

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=84.92  E-value=4.5  Score=21.94  Aligned_cols=32  Identities=9%  Similarity=0.061  Sum_probs=17.3

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCchhhHHHHH
Q 022131          231 CEKQKWKEACQYFVEMIEKGLLPQKVTFETLY  262 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  262 (302)
                      .+.|-.+++..++++|.+.|+..+...+..++
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            34455555555555555555555555555444

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=84.87  E-value=19  Score=32.32  Aligned_cols=34  Identities=15%  Similarity=0.108  Sum_probs=16.3

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHH
Q 022131            7 YGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLN   42 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   42 (302)
                      ..+.-.|+|+.|++.+-.  ..+...+...+...+.
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~  299 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALA  299 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHH
Confidence            445556777777766655  2223444444444444

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=84.56  E-value=10  Score=25.66  Aligned_cols=45  Identities=13%  Similarity=0.149  Sum_probs=26.7

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          204 VREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ..+.++.+....+.|++.....-+++|.+-+|+..|.++|+-++.
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344444555555566666666666666666666666666665544

>PRK09687 putative lyase; Provisional

Probab=84.30  E-value=19  Score=28.54  Aligned_cols=218  Identities=12%  Similarity=0.027  Sum_probs=107.4

Q ss_pred             ccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCc----hhHHHHHHHHHh
Q 022131           32 PNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQP----QLSLDKLNFMKE  107 (302)
Q Consensus        32 ~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~----~~a~~~~~~~~~  107 (302)
                      +|.......+.++...|.           +++...+..+...   +|...-...+.++.+.|+.    +++...+..+..
T Consensus        35 ~d~~vR~~A~~aL~~~~~-----------~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~  100 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGG-----------QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLAL  100 (280)
T ss_pred             CCHHHHHHHHHHHHhcCc-----------chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHh
Confidence            355555555555555221           2233333343332   3555555566666666653    345666665533


Q ss_pred             cCCCcCHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCC
Q 022131          108 KGICPTVATYSSVVKCLCSCGRI-----EDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCV  182 (302)
Q Consensus       108 ~~~~~~~~~~~~ll~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  182 (302)
                      .  .++..+-...+.++...+..     ..+...+......   ++..+-...+.++...++ ..+...+..+.+.    
T Consensus       101 ~--D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d----  170 (280)
T PRK09687        101 E--DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVIND-EAAIPLLINLLKD----  170 (280)
T ss_pred             c--CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC----
Confidence            3  24555555555555544321     2233333333322   355555566666666665 3455555555543    


Q ss_pred             CCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHH
Q 022131          183 PNMHSYNILIGMFMALN-RMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETL  261 (302)
Q Consensus       183 ~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  261 (302)
                      ++..+-...+.++.+.+ +.+.+...+..+..   .++..+-...+.++.+.|+ ..|+..+.+..+.+   +  .....
T Consensus       171 ~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a  241 (280)
T PRK09687        171 PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLI  241 (280)
T ss_pred             CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHH
Confidence            23334444444555432 13345555555543   2455666666666666666 34555554444432   1  23345


Q ss_pred             HHHHhhcchHHHHHHHHHhccc
Q 022131          262 YRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       262 ~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      +.++...|.. ++...+.++.+
T Consensus       242 ~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        242 IEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             HHHHHhcCCH-hHHHHHHHHHh
Confidence            6666666664 45555555544

>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=84.19  E-value=15  Score=27.27  Aligned_cols=80  Identities=14%  Similarity=0.108  Sum_probs=59.1

Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC--CCCCHHHHHHHHHHHHhcCCH
Q 022131          124 LCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL--CVPNMHSYNILIGMFMALNRM  201 (302)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  201 (302)
                      ..+.|+ ++|.+.|-++...+.--++..-..+...| ...+.+++..++.+..+...  ..+|+..+..|++.+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            445555 67888888888776544555555555544 57788999999888766432  157899999999999999999


Q ss_pred             HHHH
Q 022131          202 DMVR  205 (302)
Q Consensus       202 ~~a~  205 (302)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8875

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=83.96  E-value=22  Score=29.00  Aligned_cols=67  Identities=12%  Similarity=-0.006  Sum_probs=41.5

Q ss_pred             CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          147 PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC--VPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       147 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      ....+|..+.+.+.+.|+++.|...+..+...+..  ...+.....-+...-..|+..+|...++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34556777777777777777777777777664310  11233334445555666777777777776665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=83.63  E-value=37  Score=31.38  Aligned_cols=221  Identities=10%  Similarity=0.019  Sum_probs=118.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCH-------HHHHHHH-HHHHhcCCchhHHHHHHHHHhc----CCCcCHHHHHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDV-------TSFSIVL-HVYSRAHQPQLSLDKLNFMKEK----GICPTVATYSSVVKCL  124 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~  124 (302)
                      ..++.+|..+..+....-..|+.       ..|+.+- ......|+++.|.++-+.....    -..+....+.++..+.
T Consensus       428 ~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~  507 (894)
T COG2909         428 QHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAA  507 (894)
T ss_pred             ccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHH
Confidence            56677888888777654222221       1333332 2233478889998888777654    2233455667777788


Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChh---hHHHHH--HHHHccCCchH--HHHHHHHHHhC-----CCCCCCHHHHHHHH
Q 022131          125 CSCGRIEDAEELLGEMVRNGVCPSAE---TYNCFF--KEYRGRKDANG--AMKLYRQMKED-----GLCVPNMHSYNILI  192 (302)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~--~~~~~~~~~~~--a~~~~~~~~~~-----~~~~~~~~~~~~l~  192 (302)
                      .-.|++++|..+..+..+..-..+..   .|..+.  ..+...|+...  ....+......     ....+-..+...+.
T Consensus       508 ~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll  587 (894)
T COG2909         508 HIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLL  587 (894)
T ss_pred             HHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHH
Confidence            88899999999888776542223333   333332  23455663322  22223222222     11011223444555


Q ss_pred             HHHHhcCCHHHHHHH----HHHHHhCCCCCCHHHH--HHHHHHHHHcCCHHHHHHHHHHHHHCCCCC----chhhHHHHH
Q 022131          193 GMFMALNRMDMVREI----WNDVKGSGLGPDLDSY--TMLIHGLCEKQKWKEACQYFVEMIEKGLLP----QKVTFETLY  262 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~~~~~~~~p----~~~~~~~l~  262 (302)
                      .++.+   .+.+..-    +.--......|-...+  ..|+......|+.++|...++++......+    +..+-...+
T Consensus       588 ~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v  664 (894)
T COG2909         588 RAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKV  664 (894)
T ss_pred             HHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHh
Confidence            55555   3333222    2222222222222222  367788889999999999999987653222    222222333


Q ss_pred             H--HHhhcchHHHHHHHHHh
Q 022131          263 R--GLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       263 ~--~~~~~g~~~~a~~~~~~  280 (302)
                      +  .....|+.+.+.....+
T Consensus       665 ~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         665 KLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             hHHHhcccCCHHHHHHHHHh
Confidence            2  33467888777776655

>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=83.40  E-value=6.7  Score=23.96  Aligned_cols=47  Identities=15%  Similarity=0.189  Sum_probs=29.6

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          197 ALNRMDMVREIWNDVKGSGLGPD--LDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      ..++.++|+..|....+.-..|.  -.++..++.+|+..|++.+++++.
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            55566777777777666522222  135566777777777777776654

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

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=83.27  E-value=28  Score=29.82  Aligned_cols=75  Identities=16%  Similarity=0.156  Sum_probs=52.6

Q ss_pred             HHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHH
Q 022131          153 NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP-DLDSYTMLI  227 (302)
Q Consensus       153 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li  227 (302)
                      ..+..++-+.|+.++|.+.++++.+..-...+......|+.++...+.+.++..++.+..+...+. -...|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            345556668899999999999998764212244567788999999999999999999876543322 234555544

The molecular function of this protein is uncertain.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=82.88  E-value=14  Score=29.89  Aligned_cols=50  Identities=10%  Similarity=-0.067  Sum_probs=24.7

Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWND  210 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (302)
                      |.+.|.+++|++.|.......  +.|.+++..-..+|.+...+..|+.-...
T Consensus       107 yFKQgKy~EAIDCYs~~ia~~--P~NpV~~~NRA~AYlk~K~FA~AE~DC~~  156 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAVY--PHNPVYHINRALAYLKQKSFAQAEEDCEA  156 (536)
T ss_pred             hhhccchhHHHHHhhhhhccC--CCCccchhhHHHHHHHHHHHHHHHHhHHH
Confidence            445555555555555544442  22555555555555555555544443333

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.74  E-value=37  Score=30.73  Aligned_cols=77  Identities=10%  Similarity=0.237  Sum_probs=38.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHH
Q 022131          195 FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTW  274 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  274 (302)
                      +...|+..+|.++-.+.+    -||-..|-.=+.+++..+++++-.++-+..+      ++.-|..++.+|.+.|+.++|
T Consensus       694 li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA  763 (829)
T KOG2280|consen  694 LILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEA  763 (829)
T ss_pred             HHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHH
Confidence            333444444444433332    2455555555555555565555444443321      134455566666666666666


Q ss_pred             HHHHHhc
Q 022131          275 RRLKKKL  281 (302)
Q Consensus       275 ~~~~~~~  281 (302)
                      .+++.+.
T Consensus       764 ~KYiprv  770 (829)
T KOG2280|consen  764 KKYIPRV  770 (829)
T ss_pred             hhhhhcc
Confidence            6665543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=82.14  E-value=19  Score=29.20  Aligned_cols=88  Identities=13%  Similarity=0.020  Sum_probs=57.0

Q ss_pred             HHHhcCCcchHHHHHHHHHhCCCcc-cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            8 GWCKINRIDMAERFLGEMIERGVEP-NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      -|.+.|.+++|++.|......  .| +..++..-..+|.+          .+.+..|+.-.+.....+ ..-...|..-+
T Consensus       106 ~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk----------~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~  172 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLK----------QKSFAQAEEDCEAAIALD-KLYVKAYSRRM  172 (536)
T ss_pred             hhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHH----------HHHHHHHHHhHHHHHHhh-HHHHHHHHHHH
Confidence            478899999999999887765  45 77888888888998          777777766665555432 11122333333


Q ss_pred             HHHHhcCCchhHHHHHHHHHhc
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEK  108 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~  108 (302)
                      .+-...|...+|.+=++..++.
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLAL  194 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhh
Confidence            3444445556666656655554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.09  E-value=28  Score=30.66  Aligned_cols=133  Identities=11%  Similarity=0.081  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      ...+.+.+.+.+.|..++|+++         .+|...   -.....+.|+++.|.++..+.      .+..-|..|.++.
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~la~e~------~s~~Kw~~Lg~~a  676 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFDLAVEA------NSEVKWRQLGDAA  676 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHHHHHhh------cchHHHHHHHHHH
Confidence            4556677777777777766543         223222   123345679999998877664      3677899999999


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      .+.+++..|.+.|......          ..|+-.+...|+.+....+-....+.|. .|.     ..-+|...|+++++
T Consensus       677 l~~~~l~lA~EC~~~a~d~----------~~LlLl~t~~g~~~~l~~la~~~~~~g~-~N~-----AF~~~~l~g~~~~C  740 (794)
T KOG0276|consen  677 LSAGELPLASECFLRARDL----------GSLLLLYTSSGNAEGLAVLASLAKKQGK-NNL-----AFLAYFLSGDYEEC  740 (794)
T ss_pred             hhcccchhHHHHHHhhcch----------hhhhhhhhhcCChhHHHHHHHHHHhhcc-cch-----HHHHHHHcCCHHHH
Confidence            9999999999999876543          4567777788888777777776666653 232     33456778999999


Q ss_pred             HHHHHHH
Q 022131          240 CQYFVEM  246 (302)
Q Consensus       240 ~~~~~~~  246 (302)
                      .+++.+-
T Consensus       741 ~~lLi~t  747 (794)
T KOG0276|consen  741 LELLIST  747 (794)
T ss_pred             HHHHHhc
Confidence            9888764

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.48  E-value=40  Score=30.27  Aligned_cols=185  Identities=11%  Similarity=0.043  Sum_probs=108.0

Q ss_pred             HHHHHHHHHH-hcCCCCC--HHHHHHHHHHHH-hcCCchhHHHHHHHHHhcCCCcCHH-----HHHHHHHHHhccCCHHH
Q 022131           62 NAEKVFDEMR-VRGIEPD--VTSFSIVLHVYS-RAHQPQLSLDKLNFMKEKGICPTVA-----TYSSVVKCLCSCGRIED  132 (302)
Q Consensus        62 ~a~~~~~~~~-~~~~~~~--~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~ll~~~~~~~~~~~  132 (302)
                      .|++.++-+. +..++|.  ..++-.+...+. ...+++.|...+++.....-.++..     .-..++..+.+.+... 
T Consensus        39 ~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-  117 (608)
T PF10345_consen   39 TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-  117 (608)
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-
Confidence            3444555555 3334443  334555566555 6788999999999875443222211     2235567777777666 


Q ss_pred             HHHHHHHHHHCC----CCCChhhHHHH-HHHHHccCCchHHHHHHHHHHhCCC--CCCCHHHHHHHHHHHH--hcCCHHH
Q 022131          133 AEELLGEMVRNG----VCPSAETYNCF-FKEYRGRKDANGAMKLYRQMKEDGL--CVPNMHSYNILIGMFM--ALNRMDM  203 (302)
Q Consensus       133 a~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~--~~~~~~~  203 (302)
                      |...+++.++.-    ..+-...+..+ +..+...++...|.+.++.+.....  ..|...++-.++.+..  +.+..++
T Consensus       118 a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d  197 (608)
T PF10345_consen  118 ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDD  197 (608)
T ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchh
Confidence            999888876541    11222333333 2233334799999999988866532  1444555555555544  4465677


Q ss_pred             HHHHHHHHHhCC---------CCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHH
Q 022131          204 VREIWNDVKGSG---------LGPDLDSYTMLIHGL--CEKQKWKEACQYFVEMI  247 (302)
Q Consensus       204 a~~~~~~~~~~~---------~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~~~  247 (302)
                      +.+..+.+....         ..|...+|..+++.+  ...|+++.+...++++.
T Consensus       198 ~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  198 VLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777777663321         234566777777665  56788777777766654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=81.02  E-value=7.4  Score=28.70  Aligned_cols=55  Identities=18%  Similarity=0.134  Sum_probs=36.2

Q ss_pred             hcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 022131          197 ALNRMDMVREIWNDVKG-SGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP  253 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p  253 (302)
                      ...+.+......+...+ ....|+..+|..++.++...|+.++|.+...++..  .-|
T Consensus       120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~--lyP  175 (193)
T PF11846_consen  120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR--LYP  175 (193)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCC
Confidence            44554444443333322 12468888888888888888888888888888866  345

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=80.69  E-value=4.4  Score=31.92  Aligned_cols=44  Identities=18%  Similarity=0.179  Sum_probs=31.5

Q ss_pred             CCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHH
Q 022131          218 PDLD-SYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETL  261 (302)
Q Consensus       218 ~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  261 (302)
                      |+.. -|+..|...++.||+++|+.++++..+.|+.--..+|-..
T Consensus       254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~  298 (303)
T PRK10564        254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISS  298 (303)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHH
Confidence            4444 4568888888888888888888888888876555555443

>PHA02875 ankyrin repeat protein; Provisional

Probab=80.68  E-value=26  Score=29.49  Aligned_cols=68  Identities=18%  Similarity=0.257  Sum_probs=30.9

Q ss_pred             HHHHHhcCCCCCHHH--HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHH--HHHHHHHHHhccCCHHHHHHHHH
Q 022131           67 FDEMRVRGIEPDVTS--FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVA--TYSSVVKCLCSCGRIEDAEELLG  138 (302)
Q Consensus        67 ~~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~  138 (302)
                      ++.+.+.|..|+...  ..+.+...+..|+.+    +.+.+.+.|..|+..  .....+...+..|+.+.+..+++
T Consensus        18 v~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~   89 (413)
T PHA02875         18 ARRLLDIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLD   89 (413)
T ss_pred             HHHHHHCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHH
Confidence            444445565554322  223444455556644    334444455444322  11223444455677666554443

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=80.06  E-value=7.5  Score=21.07  Aligned_cols=37  Identities=11%  Similarity=0.073  Sum_probs=30.8

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHH
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLN   42 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   42 (302)
                      +....+.|-..++..+++.|.+.|+..+...+..++.
T Consensus         9 L~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen    9 LLLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            3445578888999999999999999888888888775

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

---

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	302
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-12

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 73.3 bits (178), Expect = 1e-14
 Identities = 26/205 (12%), Positives = 65/205 (31%), Gaps = 5/205 (2%)

Query: 48  ASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLS---LDKLNF 104
           A L      + ++   +    +     +                  Q  L+   L   + 
Sbjct: 96  ARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHG 155

Query: 105 MKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY-RGRK 163
            ++K    T+  Y++V+      G  ++   +L  +   G+ P   +Y    +   R  +
Sbjct: 156 QRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQ 215

Query: 164 DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSY 223
           DA    +   QM ++GL +  +    +L+        +  V ++          P   + 
Sbjct: 216 DAGTIERCLEQMSQEGLKLQAL-FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNT 274

Query: 224 TMLIHGLCEKQKWKEACQYFVEMIE 248
           + L+  +  K       +  + +  
Sbjct: 275 SKLLRDVYAKDGRVSYPKLHLPLKT 299

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 66.0 bits (159), Expect = 3e-12
 Identities = 24/187 (12%), Positives = 58/187 (31%), Gaps = 13/187 (6%)

Query: 1   MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI 60
           MY +++ GW +          L  + + G+ P++++Y   L  + R+         ++  
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQ---------DQDA 217

Query: 61  RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV 120
              E+  ++M   G++      +++L    RA   +               P     S +
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 121 VKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL 180
           ++ + +    +D      ++                 E   R       K     KE   
Sbjct: 278 LRDVYA----KDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKH 333

Query: 181 CVPNMHS 187
               + +
Sbjct: 334 ARKTLKT 340

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	302
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	99.93
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.82
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.75
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.74
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.74
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.73
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.73
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.72
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.71
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.69
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.69
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.69
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.67
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.67
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.66
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.65
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.64
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.63
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.61
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.6
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.6
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.59
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.59
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.59
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.58
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.56
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.54
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.53
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.52
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.51
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.5
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.49
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.47
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.47
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.46
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.45
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.44
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.44
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.4
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.4
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.39
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.36
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.33
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.33
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.32
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.31
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.31
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.3
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.29
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.27
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.27
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.25
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.21
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.21
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.2
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.2
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.2
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.2
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.19
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.18
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.17
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.16
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.15
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.15
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.15
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.14
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.11
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.11
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.09
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.07
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.06
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.03
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.02
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.01
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.0
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.99
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.98
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.98
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.97
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.94
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.92
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.92
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.9
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.9
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.9
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.9
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.89
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.88
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.87
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.87
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.86
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.84
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.84
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.84
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.83
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.83
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.83
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.8
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.77
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.76
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.76
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.75
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.73
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.72
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.7
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.7
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.69
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.69
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.69
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.67
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.66
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.64
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.63
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.63
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.62
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.6
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.6
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.59
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.59
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.59
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.58
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.57
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.52
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.51
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.47
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.47
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.43
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.43
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.42
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.41
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.41
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.41
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.41
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.41
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.39
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.35
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.32
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.3
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.29
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.27
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.23
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.23
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.17
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.16
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.16
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.15
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.15
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.12
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.11
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.03
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.99
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.94
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.93
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.9
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.88
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.87
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.86
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.82
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.74
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.69
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.38
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.18
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.18
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.16
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.14
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.09
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.09
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.01
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.0
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.9
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.88
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.87
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.7
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.57
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.57
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.46
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.38
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.35
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.92
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.92
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.88
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.87
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.77
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.54
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.51
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.01
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.88
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.23
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.77
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.28
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.8
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.56
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.09
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.91
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.64
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.53
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.19
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.07
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.93
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.92
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.41
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.37
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.98
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.54
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.49
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.3
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.85
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.83
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	86.6
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	85.47
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.2
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	83.48
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	81.95
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	80.73

>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=3.1e-36  Score=251.46  Aligned_cols=208  Identities=14%  Similarity=0.164  Sum_probs=183.0

Q ss_pred             HHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCC---------H
Q 022131           61 RNAEKVFDEMRVRGIEPDV-TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGR---------I  130 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---------~  130 (302)
                      ..+..+.+++.+.+..+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3456667777777765444 46889999999999999999999999999999999999999999997664         6


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 022131          131 EDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWND  210 (302)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (302)
                      ++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|. .||..+|+.+|.+|++.|++++|.++|++
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~-~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~  165 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGI-QPRLRSYGPALFGFCRKGDADKAYEVDAH  165 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCccceehHHHHHHHHCCCHHHHHHHHHH
Confidence            88999999999999999999999999999999999999999999999997 99999999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcc
Q 022131          211 VKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSD  269 (302)
Q Consensus       211 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  269 (302)
                      |.+.|+.||..+|+.||.+|++.|+.++|.+++++|++.|..|+..||+.++..|...+
T Consensus       166 M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          166 MVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999999999999887643

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=5.4e-36  Score=250.04  Aligned_cols=195  Identities=19%  Similarity=0.276  Sum_probs=185.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      ++.+|.+|++.|++++|.++|++|.+.|++||..+||.+|.+|++.+....... .+.+++|.++|++|...|+.||..|
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~-~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSP-NPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSC-CHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhh-cchHHHHHHHHHHHHHhCCCCCHHH
Confidence            678899999999999999999999999999999999999999998766543322 5788999999999999999999999


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      |+.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      .|+.++|.+++++|.+.+. .|+..||+.++..|...
T Consensus       188 ~g~~d~A~~ll~~Mr~~g~-~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          188 TKNADKVYKTLQRLRDLVR-QVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCHHHHHHHHHHHHHHTS-SBCHHHHHHHHHHHHSH
T ss_pred             CCCHHHHHHHHHHHHHhCC-CcCHHHHHHHHHHHhcC
Confidence            9999999999999999998 99999999999998864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=3.2e-27  Score=203.59  Aligned_cols=268  Identities=7%  Similarity=-0.091  Sum_probs=235.6

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |+.++..|.+.|++++|.++|+++.+.+ +.+..+++.++.++.+          .|++++|..+++++.... +.+..+
T Consensus       308 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~-~~~~~~  375 (597)
T 2xpi_A          308 LLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHE----------SGEKNKLYLISNDLVDRH-PEKAVT  375 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTSHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHH----------hCCHHHHHHHHHHHHhhC-cccHHH
Confidence            6788899999999999999999998764 3477789999999998          888899999999998663 457889


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      ++.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+. .+..+|..++.+|.+
T Consensus       376 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~  453 (597)
T 2xpi_A          376 WLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHMQ  453 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHH
Confidence            9999999999999999999999998864 34688999999999999999999999999988753 578899999999999


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHHcCC
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS----GLGPD--LDSYTMLIHGLCEKQK  235 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~  235 (302)
                      .|++++|.++|+++.+..  +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|+
T Consensus       454 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          454 LGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            999999999999998876  678899999999999999999999999998875    66777  7899999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          236 WKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       236 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      +++|.+.++++.+.+ +.+..+|..+..+|...|++++|.++++++.+...
T Consensus       532 ~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          532 YDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            999999999998754 44788999999999999999999999999887644

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=4.3e-28  Score=209.01  Aligned_cols=266  Identities=11%  Similarity=-0.004  Sum_probs=240.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |+.++..|.+.|++++|.++|+++.+.  +++..+|+.++..+.+          .|++++|.++|+++.+.+ +.+..+
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~-~~~~~~  341 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFV----------RSRFIDVLAITTKILEID-PYNLDV  341 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCCTT
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHH----------hcCHHHHHHHHHHHHHcC-cccHHH
Confidence            344466778899999999999999876  6899999999999999          889999999999999875 347889


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      ++.++.++.+.|++++|..+++++.+.. +.+..++..++.+|.+.|++++|.++|+++.+... .+..+|+.++.+|.+
T Consensus       342 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~  419 (597)
T 2xpi_A          342 YPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDP-QFGPAWIGFAHSFAI  419 (597)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            9999999999999999999999998764 45788999999999999999999999999988643 468899999999999


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      .|++++|.++|+++.+.+  +.+..++..++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.+
T Consensus       420 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  496 (597)
T 2xpi_A          420 EGEHDQAISAYTTAARLF--QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAIN  496 (597)
T ss_dssp             HTCHHHHHHHHHHHHHTT--TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            999999999999999886  6788999999999999999999999999998863 4578999999999999999999999


Q ss_pred             HHHHHHHC----CCCCc--hhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          242 YFVEMIEK----GLLPQ--KVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       242 ~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +|+++.+.    +..|+  ..+|..+..+|.+.|++++|.++++++.+.+
T Consensus       497 ~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          497 HFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            99999876    66787  6899999999999999999999999988765

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.93  E-value=3.1e-22  Score=163.53  Aligned_cols=276  Identities=12%  Similarity=0.029  Sum_probs=185.1

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhh------------------------H
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERF------------------------E   57 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~------------------------~   57 (302)
                      |+.+...+.+.|++++|++.|+++.+.. +.+..+|..+..++...|++..+...                        .
T Consensus        70 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  148 (388)
T 1w3b_A           70 YSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKAL  148 (388)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHc
Confidence            5677778888888888888888887652 33455677777777775544432211                        3


Q ss_pred             HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHH
Q 022131           58 KTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELL  137 (302)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  137 (302)
                      |++++|.+.|+++.... +.+..+|..+...+.+.|++++|...|+++.+.+. .+...+..+...+...|++++|...+
T Consensus       149 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~  226 (388)
T 1w3b_A          149 GRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAY  226 (388)
T ss_dssp             SCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            45566666666666542 22455666666666666666666666666666542 24556666666666666666666666


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022131          138 GEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG  217 (302)
Q Consensus       138 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (302)
                      ++..+... .+..++..+...+...|++++|...++++.+..  +.+..++..+...+.+.|++++|.+.++++.+. .+
T Consensus       227 ~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p  302 (388)
T 1w3b_A          227 LRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ--PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CP  302 (388)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CT
T ss_pred             HHHHhhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-Cc
Confidence            66665432 346667777777777777777777777777764  455667777777777777777777777777765 34


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          218 PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       218 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      .+..++..+...+...|++++|...++++.+. .+.+..++..+..++.+.|++++|...++++.+..
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          303 THADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            56777777777777778888888887777653 23345667777777778888888888877776543

>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=5.4e-22  Score=162.10  Aligned_cols=267  Identities=12%  Similarity=0.029  Sum_probs=185.9

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      +..+...+...|++++|...++...+. .+.+..+|..+...+.+          .|++++|+..|+++.... +.+..+
T Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~a~~~-~p~~~~~~~~lg~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~  103 (388)
T 1w3b_A           36 LLLLSSIHFQCRRLDRSAHFSTLAIKQ-NPLLAEAYSNLGNVYKE----------RGQLQEAIEHYRHALRLK-PDFIDG  103 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHcC-cchHHH
Confidence            345667788999999999999998876 35678899999999999          888899999999888763 335567


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      |..+..++.+.|++++|.+.++++.+... .+...+..+...+...|++++|...|+++.+... .+..+|..+...+..
T Consensus       104 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~  181 (388)
T 1w3b_A          104 YINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQP-NFAVAWSNLGCVFNA  181 (388)
T ss_dssp             HHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            88888888888888888888877776542 2344555566666666666666666666655422 234455555555555


Q ss_pred             cCCchHHHHHHHHHHhCCC--------------------------------CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGL--------------------------------CVPNMHSYNILIGMFMALNRMDMVREIWN  209 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~--------------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (302)
                      .|++++|...|+++.+...                                .+.+..++..+...+...|++++|.+.++
T Consensus       182 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  261 (388)
T 1w3b_A          182 QGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYR  261 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5555555555554443320                                03345666777777777777777777777


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          210 DVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       210 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ++.+.+ +.+..+|..+..++.+.|++++|...++++.+. .+.+..++..+...+...|++++|...++++.+.
T Consensus       262 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          262 RAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            777652 235667777777777888888888888877764 2446677777777888888888888888777654

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=4.1e-21  Score=159.84  Aligned_cols=263  Identities=10%  Similarity=0.014  Sum_probs=138.6

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+...+.+.|++++|+.+|+.+.+. .+.+..++..+..++..          .|++++|+..|+++.+.+ +.+..+
T Consensus        29 ~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~   96 (450)
T 2y4t_A           29 HLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLA----------MGKSKAALPDLTKVIQLK-MDFTAA   96 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHhcC-CCcHHH
Confidence            455666677777777777777777654 23356666777777776          555666666666666553 224555


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCH---HHHHHH------------HHHHhccCCHHHHHHHHHHHHHCCCC
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTV---ATYSSV------------VKCLCSCGRIEDAEELLGEMVRNGVC  146 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~  146 (302)
                      +..+..++.+.|++++|...|+++.+.... +.   ..+..+            ...+.+.|++++|...|+++.+... 
T Consensus        97 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-  174 (450)
T 2y4t_A           97 RLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-  174 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-
Confidence            666666666666666666666666554311 22   333333            2224455555555555555544321 


Q ss_pred             CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH------------------------------
Q 022131          147 PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFM------------------------------  196 (302)
Q Consensus       147 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~------------------------------  196 (302)
                      .+..++..+..+|...|++++|...++++.+..  +.+..++..+...+.                              
T Consensus       175 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~  252 (450)
T 2y4t_A          175 WDAELRELRAECFIKEGEPRKAISDLKAASKLK--NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYK  252 (450)
T ss_dssp             TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            234444444455555555555555555444432  334444444444444                              


Q ss_pred             ----------------hcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch
Q 022131          197 ----------------ALNRMDMVREIWNDVKGSGLGPD-----LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       197 ----------------~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                                      ..|++++|...++++.+.  .|+     ...+..+..++.+.|++++|...++++.+.. +.+.
T Consensus       253 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~  329 (450)
T 2y4t_A          253 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNV  329 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccH
Confidence                            445555555555544442  222     2244445555555555555555555554421 2234


Q ss_pred             hhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          256 VTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       256 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      .++..+..+|...|++++|...+++..+
T Consensus       330 ~~~~~l~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          330 NALKDRAEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            5555555555555555555555555544

>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=1.1e-20  Score=157.23  Aligned_cols=256  Identities=10%  Similarity=0.023  Sum_probs=185.6

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchh--------------------------
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSER--------------------------   55 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~--------------------------   55 (302)
                      |..+..++...|++++|+..|+++.+.+ +.+...+..+...+...|++..+..                          
T Consensus        63 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~  141 (450)
T 2y4t_A           63 YYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSD  141 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHH
Confidence            4556666777777777777777776653 2345566666666666333321110                          


Q ss_pred             -------------hHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHH
Q 022131           56 -------------FEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVK  122 (302)
Q Consensus        56 -------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  122 (302)
                                   -.+++++|+..|+++.... +.+..++..+..++.+.|++++|...++++.+.. +.+..++..+..
T Consensus       142 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  219 (450)
T 2y4t_A          142 EMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKIST  219 (450)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                         0234556666666666543 3356677778888888888888888888887764 346788888888


Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH------------HHHHHccCCchHHHHHHHHHHhCCCCCCC----HH
Q 022131          123 CLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF------------FKEYRGRKDANGAMKLYRQMKEDGLCVPN----MH  186 (302)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  186 (302)
                      +|...|++++|...|+++.+... .+...+..+            ...+...|++++|...++++.+..  +.+    ..
T Consensus       220 ~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~  296 (450)
T 2y4t_A          220 LYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVR  296 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHH
Confidence            99999999999999998887532 344445444            778889999999999999998864  223    44


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch-hhHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK-VTFETLYRGL  265 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~  265 (302)
                      .+..+..++.+.|++++|...++++.+. .+.+...|..+..+|...|++++|...++++.+  +.|+. ..+..+..+.
T Consensus       297 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~-~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~  373 (450)
T 2y4t_A          297 SKERICHCFSKDEKPVEAIRVCSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLEKAQ  373 (450)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHHHHH
Confidence            7888899999999999999999998875 244789999999999999999999999999987  45654 4444444433


Q ss_pred             h
Q 022131          266 I  266 (302)
Q Consensus       266 ~  266 (302)
                      .
T Consensus       374 ~  374 (450)
T 2y4t_A          374 R  374 (450)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.89  E-value=6.5e-20  Score=146.14  Aligned_cols=268  Identities=8%  Similarity=-0.091  Sum_probs=229.8

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      +..+...+...|++++|+++|+++.+.. +.+...+..+...+..          .+++++|...++++.+.. +.+...
T Consensus        25 ~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~   92 (330)
T 3hym_B           25 VVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVE----------LNKANELFYLSHKLVDLY-PSNPVS   92 (330)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTSTHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHH----------hhhHHHHHHHHHHHHHhC-cCCHHH
Confidence            3456778888999999999999998763 3455677777888888          888999999999999874 346788


Q ss_pred             HHHHHHHHHhcC-CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           82 FSIVLHVYSRAH-QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        82 ~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +..+...+...| ++++|...++++.+.. +.+...+..+...+...|++++|...+++..+... .+...+..+...+.
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~  170 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            999999999999 9999999999999875 33677899999999999999999999999998743 35677888999999


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG--------LGPDLDSYTMLIHGLCE  232 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~li~~~~~  232 (302)
                      ..|++++|...+++..+..  +.+...+..+...+...|++++|...+++..+..        .+.+..++..+..++..
T Consensus       171 ~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~  248 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSIA--PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRK  248 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHH
Confidence            9999999999999999886  6778999999999999999999999999987631        13446789999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          233 KQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       233 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      .|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+...
T Consensus       249 ~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  301 (330)
T 3hym_B          249 LKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRR  301 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCS
T ss_pred             hcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCC
Confidence            999999999999998752 33567888999999999999999999999877553

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=1.2e-20  Score=152.85  Aligned_cols=264  Identities=10%  Similarity=-0.000  Sum_probs=216.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+...+.+.|++++|++.|+++.+.. +.+..+|..+...+..          .|++++|+..|+++.+.. +.+..+
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~  135 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAE----------NENEQAAIVALQRCLELQ-PNNLKA  135 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            5567788999999999999999998863 4477889999999999          888999999999999874 346889


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCC---------cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CChhh
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGIC---------PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PSAET  151 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~  151 (302)
                      +..+..++...|++++|...++++.+....         .....+..+...+.+.|++++|...++++.+.... ++..+
T Consensus       136 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  215 (365)
T 4eqf_A          136 LMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDL  215 (365)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHH
T ss_pred             HHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHH
Confidence            999999999999999999999999876311         01223344588899999999999999999987432 16889


Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLC  231 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  231 (302)
                      +..+...+...|++++|...++++.+..  +.+..++..+..++...|++++|...++++.+. .+.+..++..+..+|.
T Consensus       216 ~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~  292 (365)
T 4eqf_A          216 QTGLGVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI-QPGFIRSRYNLGISCI  292 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCchHHHHHHHHHHH
Confidence            9999999999999999999999999886  678899999999999999999999999999886 2346889999999999


Q ss_pred             HcCCHHHHHHHHHHHHHCC---CC--------CchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          232 EKQKWKEACQYFVEMIEKG---LL--------PQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~---~~--------p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      ..|++++|...|+++.+..   ..        .+...|..+..++...|+.+.+..+.++
T Consensus       293 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          293 NLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999999997641   01        1367889999999999999999988766

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.88  E-value=3.8e-20  Score=149.90  Aligned_cols=262  Identities=9%  Similarity=-0.017  Sum_probs=215.3

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+...+.+.|++++|...|+++.+.. +.+...+..+..++..          .|++++|...|+++.+.+ +.+..+
T Consensus        67 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~al~~~-~~~~~~  134 (368)
T 1fch_A           67 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAE----------NEQELLAISALRRCLELK-PDNQTA  134 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------CcCHHHHHHHHHHHHhcC-CCCHHH
Confidence            4567778889999999999999998873 4467788888888888          788899999999998875 447888


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHH---------------HHHHHhccCCHHHHHHHHHHHHHCCCC
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSS---------------VVKCLCSCGRIEDAEELLGEMVRNGVC  146 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~~~~~~~~  146 (302)
                      +..+...+...|++++|...++++.+.... +...+..               .+..+...|++++|...++++.+....
T Consensus       135 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~  213 (368)
T 1fch_A          135 LMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPT  213 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcC
Confidence            999999999999999999999999887532 2222221               233344889999999999999886432


Q ss_pred             C-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022131          147 P-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTM  225 (302)
Q Consensus       147 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (302)
                      . +..++..+...+...|++++|...++++.+..  +.+..++..+...+...|++++|...++++.+. .+.+...+..
T Consensus       214 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~  290 (368)
T 1fch_A          214 SIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL-QPGYIRSRYN  290 (368)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCcHHHHHH
Confidence            1 57888999999999999999999999998875  567889999999999999999999999998875 2456788999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCc------------hhhHHHHHHHHhhcchHHHHHHHHHhc
Q 022131          226 LIHGLCEKQKWKEACQYFVEMIEKGLLPQ------------KVTFETLYRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~~~~~~~~p~------------~~~~~~l~~~~~~~g~~~~a~~~~~~~  281 (302)
                      +..++...|++++|...++++.+.  .|+            ..+|..+..++...|+.++|..++++-
T Consensus       291 l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          291 LGISCINLGAHREAVEHFLEALNM--QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--HHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            999999999999999999998764  222            578899999999999999999987753

>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=99.87  E-value=1e-19  Score=144.89  Aligned_cols=265  Identities=10%  Similarity=-0.021  Sum_probs=220.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+...+...|++++|..+|+++.+.. +.+...+..+...+..          .+++++|...|+++.+.. +.+..+
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~----------~~~~~~A~~~~~~a~~~~-~~~~~~   91 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAE----------NEKDGLAIIALNHARMLD-PKDIAV   91 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHhcC-cCCHHH
Confidence            3456678889999999999999998763 3467788888888888          888999999999999874 447889


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHH--------------HH-HHhccCCHHHHHHHHHHHHHCCCC
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV--------------VK-CLCSCGRIEDAEELLGEMVRNGVC  146 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~  146 (302)
                      +..+...+...|++++|.+.++++.+.... +...+..+              .. .+...|++++|...++++.+... 
T Consensus        92 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-  169 (327)
T 3cv0_A           92 HAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-  169 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-
Confidence            999999999999999999999999887422 33333333              22 37788999999999999988743 


Q ss_pred             CChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022131          147 PSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTML  226 (302)
Q Consensus       147 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  226 (302)
                      .+...+..+...+...|++++|...++++.+..  +.+..++..+...+...|++++|...++++.+.. +.+...+..+
T Consensus       170 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l  246 (327)
T 3cv0_A          170 NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNM  246 (327)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            478899999999999999999999999999885  6678899999999999999999999999988763 4468889999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCC-----------chhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          227 IHGLCEKQKWKEACQYFVEMIEKGLLP-----------QKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~~~~~~~~p-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ..++...|++++|...++++.+..-..           +..++..+..++...|+.++|..++++..+
T Consensus       247 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          247 AVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            999999999999999999998742111           367888899999999999999999876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=4.4e-18  Score=137.00  Aligned_cols=265  Identities=9%  Similarity=-0.011  Sum_probs=133.6

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHH
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSF   82 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (302)
                      ..+...+...|++++|+..|+.+.+.. +.+...+..+...+..          .|++++|...|+++.+.. +.+...+
T Consensus         7 ~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~~   74 (359)
T 3ieg_A            7 LELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLA----------MGKSKAALPDLTKVIALK-MDFTAAR   74 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHH----------ccCHHHHHHHHHHHHHhC-CCcchHH
Confidence            344555666666666666666665542 2345556666666666          555556666665555542 2244555


Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcCCC--cCHHHHHHH------------HHHHhccCCHHHHHHHHHHHHHCCCCCC
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKGIC--PTVATYSSV------------VKCLCSCGRIEDAEELLGEMVRNGVCPS  148 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~  148 (302)
                      ..+...+...|++++|...++++.+....  .+...+..+            ...+...|++++|...++++.+... .+
T Consensus        75 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~  153 (359)
T 3ieg_A           75 LQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WD  153 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-Cc
Confidence            55555555556666666555555554210  122222222            3444455555555555555544322 23


Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh-------------------------------
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA-------------------------------  197 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------------------------  197 (302)
                      ...+..+...+...|++++|...++++.+..  +.+...+..+...+..                               
T Consensus       154 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  231 (359)
T 3ieg_A          154 AELRELRAECFIKEGEPRKAISDLKAASKLK--SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQV  231 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHH
Confidence            4444445555555555555555555554443  3344444444444444                               


Q ss_pred             ---------------cCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhH
Q 022131          198 ---------------LNRMDMVREIWNDVKGSGLGPDL----DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTF  258 (302)
Q Consensus       198 ---------------~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  258 (302)
                                     .|++++|...++++.+... .+.    ..+..+..++...|++++|...+++..+. .+.+..++
T Consensus       232 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~  309 (359)
T 3ieg_A          232 KKLNKLIESAEELIRDGRYTDATSKYESVMKTEP-SVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDNVNAL  309 (359)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CcccHHHH
Confidence                           4555555555544444311 111    12333445555556666666666655553 12244555


Q ss_pred             HHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          259 ETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       259 ~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ..+...+...|++++|...+++..+.
T Consensus       310 ~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          310 KDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            55555666666666666666655543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=7.1e-18  Score=135.79  Aligned_cols=248  Identities=10%  Similarity=0.024  Sum_probs=158.8

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCC------
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGI------   75 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~------   75 (302)
                      |..+...+...|++++|...++++.+.. +-+...+..+...+..          .|++++|...|+++.+...      
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~----------~~~~~~A~~~~~~~~~~~~~~~~~~  108 (359)
T 3ieg_A           40 YYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLK----------QGKLDEAEDDFKKVLKSNPSEQEEK  108 (359)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHH----------cCChHHHHHHHHHHHhcCCcccChH
Confidence            4556677888888888888888887752 3355677777777777          5555566666655554421      


Q ss_pred             ------------------------------------------CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC
Q 022131           76 ------------------------------------------EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT  113 (302)
Q Consensus        76 ------------------------------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  113 (302)
                                                                +.+...+..+...+...|++++|...++++.+.. +.+
T Consensus       109 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~  187 (359)
T 3ieg_A          109 EAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDN  187 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCC
Confidence                                                      1233444444455555555555555555555443 224


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHH------------HHHHHHccCCchHHHHHHHHHHhCCCC
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNC------------FFKEYRGRKDANGAMKLYRQMKEDGLC  181 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------------l~~~~~~~~~~~~a~~~~~~~~~~~~~  181 (302)
                      ..++..+...+...|++++|...+++..+... .+...+..            +...+...|++++|...++++.+..  
T Consensus       188 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--  264 (359)
T 3ieg_A          188 TEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--  264 (359)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--
Confidence            45555555555555555555555555554421 22222221            1444666777777777777776654  


Q ss_pred             CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc-hh
Q 022131          182 VPNM----HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ-KV  256 (302)
Q Consensus       182 ~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~  256 (302)
                      +.+.    ..+..+..++...|++++|...+++..+. .+.+...+..+..++...|++++|...|+++.+.  .|+ ..
T Consensus       265 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~  341 (359)
T 3ieg_A          265 PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQ  341 (359)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHH
T ss_pred             CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChH
Confidence            2333    22445778899999999999999999886 3447889999999999999999999999999874  455 44


Q ss_pred             hHHHHHHHHhh
Q 022131          257 TFETLYRGLIQ  267 (302)
Q Consensus       257 ~~~~l~~~~~~  267 (302)
                      .+..+..+...
T Consensus       342 ~~~~l~~~~~~  352 (359)
T 3ieg_A          342 IREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=1.8e-21  Score=168.54  Aligned_cols=148  Identities=13%  Similarity=0.126  Sum_probs=123.1

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHh---CCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCC
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIE---RGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEP   77 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~   77 (302)
                      |||+||.+||+.|++++|.++|++|.+   .|+.||+.|||+||.+|++          .|++++|.++|++|.+.|+.|
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck----------~G~~~eA~~Lf~eM~~~G~~P  198 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR----------QGAFKELVYVLFMVKDAGLTP  198 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHh----------CCCHHHHHHHHHHHHHcCCCC
Confidence            599999999999999999999988764   4789999999999999999          889999999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCc-hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC------hh
Q 022131           78 DVTSFSIVLHVYSRAHQP-QLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS------AE  150 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~  150 (302)
                      |..|||++|.++++.|+. +.|.++|++|.+.|+.||..+|+.++..+.+.    .+++..+++ ..+..|+      ..
T Consensus       199 DvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~  273 (1134)
T 3spa_A          199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVN  273 (1134)
T ss_dssp             CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCC
T ss_pred             cHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCccccc
Confidence            999999999999999985 78999999999999999999999988765543    334444444 2234443      44


Q ss_pred             hHHHHHHHHHccC
Q 022131          151 TYNCFFKEYRGRK  163 (302)
Q Consensus       151 ~~~~l~~~~~~~~  163 (302)
                      +...|.+.|.+.+
T Consensus       274 t~~LL~dl~s~d~  286 (1134)
T 3spa_A          274 TSKLLRDVYAKDG  286 (1134)
T ss_dssp             CCTTTHHHHCCCS
T ss_pred             chHHHHHHHccCC
Confidence            5566667776655

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.3e-18  Score=147.11  Aligned_cols=94  Identities=9%  Similarity=-0.016  Sum_probs=67.8

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHH
Q 022131            3 TSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSF   82 (302)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   82 (302)
                      ......+.+.|++++|+..|+++...+  |+...|..+..++..          .|++++|+..|+++.+.+ +.+..++
T Consensus        10 ~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~~   76 (514)
T 2gw1_A           10 KDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVS----------VGDLKKVVEMSTKALELK-PDYSKVL   76 (514)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-SCCHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHH----------HhhHHHHHHHHHHHhccC-hHHHHHH
Confidence            344566777888888888888887763  677778888888877          777777777777777664 3355677


Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcC
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKG  109 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~  109 (302)
                      ..+..++...|++++|...|+++.+.+
T Consensus        77 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  103 (514)
T 2gw1_A           77 LRRASANEGLGKFADAMFDLSVLSLNG  103 (514)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            777777777777777777777665543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.84  E-value=1.1e-20  Score=163.83  Aligned_cols=128  Identities=17%  Similarity=0.162  Sum_probs=100.0

Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHh---CCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKE---DGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYT  224 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (302)
                      ...||+++|.+|++.|+.++|.++|.+|.+   .|. .||..|||+||.+|++.|++++|.++|++|.+.|+.||..|||
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~-~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRK-LLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHT-TCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCC-CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            345788888888888888888888877654   344 7888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHcCC-HHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHH
Q 022131          225 MLIHGLCEKQK-WKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRR  276 (302)
Q Consensus       225 ~li~~~~~~g~-~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  276 (302)
                      ++|.++++.|+ .++|.++|++|.+.|+.||..+|+.++.+..+.+-++.+.+
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrk  257 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHK  257 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGG
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHH
Confidence            88888888887 46788888888888888888888888765555544444333

>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=99.83  E-value=1.6e-18  Score=140.41  Aligned_cols=262  Identities=11%  Similarity=-0.049  Sum_probs=204.9

Q ss_pred             HHHhcCCcchHHH-HHHHHHhCCC-cc--cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 022131            8 GWCKINRIDMAER-FLGEMIERGV-EP--NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS   83 (302)
Q Consensus         8 ~~~~~g~~~~a~~-~~~~~~~~~~-~~--~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (302)
                      ++...|++++|.+ .+++...... .|  +...+..+...+..          .|++++|...|+++.+.. +.+..++.
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~~~  102 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQ----------EGDLPNAVLLFEAAVQQD-PKHMEAWQ  102 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHH----------TTCHHHHHHHHHHHHHSC-TTCHHHHH
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            3445677888887 7776554311 11  34567788888888          888999999999999875 44788999


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHH---------
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNC---------  154 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------  154 (302)
                      .+..++...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.... +...+..         
T Consensus       103 ~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  180 (368)
T 1fch_A          103 YLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAG  180 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC----------
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhc
Confidence            99999999999999999999999876 347889999999999999999999999999987432 2222221         


Q ss_pred             ------HHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          155 ------FFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       155 ------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                            .+..+...|++++|...++++.+.....++..++..+...+...|++++|...++++... .+.+...+..+..
T Consensus       181 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~l~~  259 (368)
T 1fch_A          181 LGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV-RPNDYLLWNKLGA  259 (368)
T ss_dssp             -----CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcCCHHHHHHHHH
Confidence                  233444889999999999999988521116889999999999999999999999998886 3446789999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          229 GLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ++...|++++|...++++.+.. +.+...+..+..++...|++++|...+++..+.
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          260 TLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999998752 345678899999999999999999999987664

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=3.1e-18  Score=134.02  Aligned_cols=254  Identities=9%  Similarity=0.022  Sum_probs=196.9

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCcccH--HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPNV--VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS   83 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (302)
                      |.-....|+++.|+..++.....  .|+.  .....+.++|..          .|+++.|+..++.    .-+|+..++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~----------~g~~~~al~~~~~----~~~~~~~a~~   69 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLA----------QRKYGVVLDEIKP----SSAPELQAVR   69 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHH----------TTCHHHHHHHSCT----TSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHH----------CCCHHHHHHHhcc----cCChhHHHHH
Confidence            34556789999999988776544  3333  455666778888          7778888876644    2356778888


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR  162 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  162 (302)
                      .+...+...++.++|++.++++...+..| +...+..+...+...|++++|+..+++      +.+...+..+...+.+.
T Consensus        70 ~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~  143 (291)
T 3mkr_A           70 MFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKL  143 (291)
T ss_dssp             HHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHC
Confidence            89999999999999999999998776434 566677777889999999999999987      46788899999999999


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSY---NILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      |++++|...++++.+..   |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|
T Consensus       144 g~~~~A~~~l~~~~~~~---p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA  219 (291)
T 3mkr_A          144 DRLDLARKELKKMQDQD---EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAA  219 (291)
T ss_dssp             TCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCHHHHHHHHHHHHhhC---cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999998874   442211   12234444568999999999999887 466888999999999999999999


Q ss_pred             HHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHH-HHHHHHhccccCC
Q 022131          240 CQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRT-WRRLKKKLDEESI  286 (302)
Q Consensus       240 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~  286 (302)
                      ...+++..+.. +-+..++..++..+...|+.++ +.++++++.+...
T Consensus       220 ~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          220 EGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            99999988752 3366788888888999998865 6788887765543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=2.7e-18  Score=138.96  Aligned_cols=239  Identities=11%  Similarity=-0.028  Sum_probs=195.6

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      +...+..+...+.+          .|++++|+..|+++.+.. +.+..++..+..++...|++++|...|+++.+.. +.
T Consensus        64 ~~~~~~~~~~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~  131 (365)
T 4eqf_A           64 DWPGAFEEGLKRLK----------EGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PN  131 (365)
T ss_dssp             TCTTHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             chhHHHHHHHHHHH----------CCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CC
Confidence            34557888888888          889999999999999875 4478899999999999999999999999999875 34


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC---------ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP---------SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP  183 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  183 (302)
                      +..++..+..+|...|++++|...++++.+.....         ....+..+...+...|++++|...++++.+.....+
T Consensus       132 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~  211 (365)
T 4eqf_A          132 NLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMI  211 (365)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSC
T ss_pred             CHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCcc
Confidence            68899999999999999999999999998753210         122334457889999999999999999998852112


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHH
Q 022131          184 NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYR  263 (302)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  263 (302)
                      +..++..+...+...|++++|...++++.+. .+.+..+|..+..+|...|++++|...|+++.+.. +.+..++..+..
T Consensus       212 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  289 (365)
T 4eqf_A          212 DPDLQTGLGVLFHLSGEFNRAIDAFNAALTV-RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGI  289 (365)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHH
Confidence            7889999999999999999999999999886 34578899999999999999999999999998752 334778899999


Q ss_pred             HHhhcchHHHHHHHHHhccccC
Q 022131          264 GLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ++...|++++|...+++..+..
T Consensus       290 ~~~~~g~~~~A~~~~~~al~~~  311 (365)
T 4eqf_A          290 SCINLGAYREAVSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999876643

>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=99.82  E-value=9.9e-18  Score=133.49  Aligned_cols=241  Identities=8%  Similarity=-0.014  Sum_probs=205.9

Q ss_pred             CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC
Q 022131           30 VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG  109 (302)
Q Consensus        30 ~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  109 (302)
                      .+.+...+..+...+..          .|++++|+++|+++.+.. +.+...+..++..+...|++++|..+++++.+..
T Consensus        18 ~~~~~~~~~~~a~~~~~----------~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~   86 (330)
T 3hym_B           18 LQENLDVVVSLAERHYY----------NCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY   86 (330)
T ss_dssp             --CCCTTHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             chhhHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            45567778888888888          888999999999998874 3356677778889999999999999999998875


Q ss_pred             CCcCHHHHHHHHHHHhccC-CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHH
Q 022131          110 ICPTVATYSSVVKCLCSCG-RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSY  188 (302)
Q Consensus       110 ~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  188 (302)
                       +.+...+..+...+...| ++++|...|++..+... .+...|..+...+...|++++|...++++.+..  +.+...+
T Consensus        87 -~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~  162 (330)
T 3hym_B           87 -PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM--KGCHLPM  162 (330)
T ss_dssp             -TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCSHHH
T ss_pred             -cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc--cccHHHH
Confidence             336788999999999999 99999999999998753 467889999999999999999999999999886  5566778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--------CCCchhhHHH
Q 022131          189 NILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG--------LLPQKVTFET  260 (302)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--------~~p~~~~~~~  260 (302)
                      ..+...+...|++++|...+++..+. .+.+...+..+...+...|++++|...++++.+..        ...+..++..
T Consensus       163 ~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  241 (330)
T 3hym_B          163 LYIGLEYGLTNNSKLAERFFSQALSI-APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNN  241 (330)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHH
Confidence            88999999999999999999999986 34578899999999999999999999999997641        1334568889


Q ss_pred             HHHHHhhcchHHHHHHHHHhccccCC
Q 022131          261 LYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       261 l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      +..++...|++++|...+++..+...
T Consensus       242 la~~~~~~g~~~~A~~~~~~a~~~~~  267 (330)
T 3hym_B          242 LGHVCRKLKKYAEALDYHRQALVLIP  267 (330)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhhCc
Confidence            99999999999999999999876543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.82  E-value=8.2e-18  Score=142.14  Aligned_cols=222  Identities=13%  Similarity=0.048  Sum_probs=145.0

Q ss_pred             HHHHHHHHHHHHHHh-----cCC--------CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHH
Q 022131           58 KTIRNAEKVFDEMRV-----RGI--------EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCL  124 (302)
Q Consensus        58 ~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  124 (302)
                      +++++|...|+++..     ...        +.+..++..+...+...|++++|...++++.+....  ..++..+...+
T Consensus       203 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~  280 (514)
T 2gw1_A          203 ESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIM  280 (514)
T ss_dssp             THHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHH
Confidence            556666666666655     210        112345666666677777777777777777665422  56666677777


Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022131          125 CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      ...|++++|...++++.+... .+..++..+...+...|++++|...++++.+..  +.+...+..+...+...|++++|
T Consensus       281 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A  357 (514)
T 2gw1_A          281 ADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD--PENIFPYIQLACLAYRENKFDDC  357 (514)
T ss_dssp             HTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC--SSCSHHHHHHHHHTTTTTCHHHH
T ss_pred             HHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--hhhHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777766532 355666777777777777777777777777664  44566677777777777777777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCc----hhhHHHHHHHHhh---cchHHHHHH
Q 022131          205 REIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGL-LPQ----KVTFETLYRGLIQ---SDMLRTWRR  276 (302)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~---~g~~~~a~~  276 (302)
                      ...++++.+. .+.+...+..+...+...|++++|...++++.+..- .++    ...+..+...+..   .|++++|..
T Consensus       358 ~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~  436 (514)
T 2gw1_A          358 ETLFSEAKRK-FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATN  436 (514)
T ss_dssp             HHHHHHHHHH-STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHH
T ss_pred             HHHHHHHHHH-cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHH
Confidence            7777777664 233556777777777777777777777777765310 111    2266777777777   777777777


Q ss_pred             HHHhccccC
Q 022131          277 LKKKLDEES  285 (302)
Q Consensus       277 ~~~~~~~~~  285 (302)
                      .+++..+..
T Consensus       437 ~~~~a~~~~  445 (514)
T 2gw1_A          437 LLEKASKLD  445 (514)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            777766543

>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=99.82  E-value=3.4e-17  Score=139.18  Aligned_cols=264  Identities=11%  Similarity=0.033  Sum_probs=212.7

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+...+.+.|++++|++.|+++.... +.+...+..+..++..          .|++++|++.|+++.+.+ +.+..+
T Consensus        28 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~   95 (537)
T 3fp2_A           28 LKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYIS----------TGDLEKVIEFTTKALEIK-PDHSKA   95 (537)
T ss_dssp             HHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHH----------cCCHHHHHHHHHHHHhcC-CchHHH
Confidence            4456678889999999999999998763 4467888888888888          888899999999988875 346778


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHH--------------------------------------------------------
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFM--------------------------------------------------------  105 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~--------------------------------------------------------  105 (302)
                      +..+..++...|++++|...|+.+                                                        
T Consensus        96 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  175 (537)
T 3fp2_A           96 LLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFD  175 (537)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcC
Confidence            888888888888888888766422                                                        


Q ss_pred             -----------------------------------------------------HhcCCCcC--------HHHHHHHHHHH
Q 022131          106 -----------------------------------------------------KEKGICPT--------VATYSSVVKCL  124 (302)
Q Consensus       106 -----------------------------------------------------~~~~~~~~--------~~~~~~ll~~~  124 (302)
                                                                           .+.  .|+        ..++..+...+
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          176 SHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHH
Confidence                                                                 111  111        22455566677


Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022131          125 CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      ...|++++|...+++..+..  |+...+..+...+...|++++|...+.++.+..  +.+..++..+...+...|++++|
T Consensus       254 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A  329 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--PEYPPTYYHRGQMYFILQDYKNA  329 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHhcCCHHHH
Confidence            78899999999999998864  557888889999999999999999999998876  56788899999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          205 REIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ...++++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.
T Consensus       330 ~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          330 KEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            99999988763 3456788899999999999999999999998752 335668888899999999999999999987654


Q ss_pred             C
Q 022131          285 S  285 (302)
Q Consensus       285 ~  285 (302)
                      .
T Consensus       408 ~  408 (537)
T 3fp2_A          408 E  408 (537)
T ss_dssp             H
T ss_pred             C
Confidence            3

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=4.5e-17  Score=127.39  Aligned_cols=245  Identities=11%  Similarity=0.107  Sum_probs=198.0

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCC-CHHHH
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEP-DVTSF   82 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~   82 (302)
                      .+..+|...|+++.|+..++.    .-+|+..++..+...+..          .++.++|++.++++...+..| +...+
T Consensus        39 ~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~----------~~~~~~A~~~l~~ll~~~~~P~~~~~~  104 (291)
T 3mkr_A           39 FLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLAS----------HSRRDAIVAELDREMSRSVDVTNTTFL  104 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHC----------STTHHHHHHHHHHHHHSCCCCSCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcC----------CCcHHHHHHHHHHHHhcccCCCCHHHH
Confidence            357889999999999986654    246677888888888888          778899999999998876444 56677


Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhH---HHHHHHH
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETY---NCFFKEY  159 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~  159 (302)
                      ..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|...++++.+..  |+....   ..++..+
T Consensus       105 ~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~  176 (291)
T 3mkr_A          105 LMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLA  176 (291)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHH
Confidence            7788999999999999999987      4578899999999999999999999999999874  443211   2233445


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH-
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE-  238 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-  238 (302)
                      ...|++++|..+|+++.+..  +.+...++.+..++.+.|++++|...+++.... -+-+..++..++..+...|+.++ 
T Consensus       177 ~~~~~~~eA~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~-~p~~~~~l~~l~~~~~~~g~~~ea  253 (291)
T 3mkr_A          177 AGGEKLQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK-DSGHPETLINLVVLSQHLGKPPEV  253 (291)
T ss_dssp             HCTTHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCCHHH
T ss_pred             hCchHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCCHHH
Confidence            56699999999999999985  788999999999999999999999999998886 24578899999999999999876 


Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHH
Q 022131          239 ACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLK  278 (302)
Q Consensus       239 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  278 (302)
                      +.++++++.+  +.|+....   .+...+.+.++++..-|
T Consensus       254 a~~~~~~~~~--~~P~~~~~---~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          254 TNRYLSQLKD--AHRSHPFI---KEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHH--HCTTCHHH---HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCCCChHH---HHHHHHHHHHHHHHHHc
Confidence            6789999887  45665433   34466777777765543

>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=99.81  E-value=1.2e-16  Score=135.73  Aligned_cols=222  Identities=11%  Similarity=0.008  Sum_probs=181.1

Q ss_pred             HHHHHHHHHHHHHHhcCCCCC-------HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCH
Q 022131           58 KTIRNAEKVFDEMRVRGIEPD-------VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRI  130 (302)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~-------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  130 (302)
                      +++++|..+|+++.+.... +       ..++..+...+...|++++|...++++.+..  |+..++..+...+...|++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCH
Confidence            3677778888887765322 2       2356777788889999999999999999874  5578899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 022131          131 EDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWND  210 (302)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (302)
                      ++|...++++.+... .+..++..+...+...|++++|...++++.+..  +.+...+..+...+...|++++|...+++
T Consensus       293 ~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~  369 (537)
T 3fp2_A          293 QEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNE  369 (537)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999988753 468889999999999999999999999999876  55678899999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-----CCchhhHHHHHHHHhhc----------chHHHHH
Q 022131          211 VKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGL-----LPQKVTFETLYRGLIQS----------DMLRTWR  275 (302)
Q Consensus       211 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~p~~~~~~~l~~~~~~~----------g~~~~a~  275 (302)
                      +.+. .+.+...+..+...+...|++++|...++++.+..-     ......+......+...          |++++|.
T Consensus       370 ~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~  448 (537)
T 3fp2_A          370 TKLK-FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAI  448 (537)
T ss_dssp             HHHH-CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHH
T ss_pred             HHHh-CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHH
Confidence            9886 345677899999999999999999999999876421     11112234445667777          9999999


Q ss_pred             HHHHhccccCC
Q 022131          276 RLKKKLDEESI  286 (302)
Q Consensus       276 ~~~~~~~~~~~  286 (302)
                      ..+++..+...
T Consensus       449 ~~~~~a~~~~p  459 (537)
T 3fp2_A          449 KLLTKACELDP  459 (537)
T ss_dssp             HHHHHHHHHCT
T ss_pred             HHHHHHHHhCC
Confidence            99999877543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=6.7e-17  Score=124.07  Aligned_cols=223  Identities=14%  Similarity=0.067  Sum_probs=191.0

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCC--CC-
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIE--PD-   78 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~-   78 (302)
                      |..+...+...|++++|...|++..+..  .+...+..+..++..          .+++++|...+++..+....  |+ 
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~----------~~~~~~A~~~~~~a~~~~~~~~~~~   75 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYE----------KGEYETAISTLNDAVEQGREMRADY   75 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHH----------cccHHHHHHHHHHHHHhCcccccch
Confidence            5667888999999999999999999886  788899999999999          88889999999998875311  12 


Q ss_pred             ---HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           79 ---VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        79 ---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                         ..++..+...+...|++++|...+++..+..  |+.       ..+.+.|++++|...++++..... .+...+..+
T Consensus        76 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~  145 (258)
T 3uq3_A           76 KVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNP-EKAEEARLE  145 (258)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCc-chHHHHHHH
Confidence               5788999999999999999999999998864  443       345666889999999999988643 356788889


Q ss_pred             HHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          156 FKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                      ...+...|++++|...+++..+..  +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++...|+
T Consensus       146 ~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~  222 (258)
T 3uq3_A          146 GKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKE  222 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999876  6678899999999999999999999999998863 4468889999999999999


Q ss_pred             HHHHHHHHHHHHHC
Q 022131          236 WKEACQYFVEMIEK  249 (302)
Q Consensus       236 ~~~a~~~~~~~~~~  249 (302)
                      +++|...+++..+.
T Consensus       223 ~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          223 YASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999998764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=6.3e-17  Score=121.18  Aligned_cols=201  Identities=8%  Similarity=-0.065  Sum_probs=164.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           76 EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        76 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                      +++...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|+..+++..+..+ .+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHH
Confidence            5677888999999999999999999999999876 34788899999999999999999999999998753 467888999


Q ss_pred             HHHHHcc-----------CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 022131          156 FKEYRGR-----------KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYT  224 (302)
Q Consensus       156 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (302)
                      ..++...           |++++|...+++..+..  +.+...+..+..++...|++++|...|++..+..  .+...+.
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN--PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHH
Confidence            9999999           99999999999999886  6678899999999999999999999999999876  7889999


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          225 MLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      .+..++...|++++|+..|++..+.. +.+...+..+..++...|++++|...+++...
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            99999999999999999999998752 33567788889999999999999999887643

>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=99.78  E-value=1.2e-16  Score=126.92  Aligned_cols=237  Identities=8%  Similarity=-0.060  Sum_probs=197.2

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      +...+..+...+..          .+++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.
T Consensus        20 ~~~~~~~~a~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~   87 (327)
T 3cv0_A           20 YHENPMEEGLSMLK----------LANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PK   87 (327)
T ss_dssp             GSSCHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             hhHHHHHHHHHHHH----------hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cC
Confidence            44456667777777          788999999999998874 3477889999999999999999999999998875 34


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHH--------------HH-HHHccCCchHHHHHHHHHHh
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCF--------------FK-EYRGRKDANGAMKLYRQMKE  177 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~  177 (302)
                      +..++..+...+...|++++|...++++.+... .+...+..+              .. .+...|++++|...++++.+
T Consensus        88 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  166 (327)
T 3cv0_A           88 DIAVHAALAVSHTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALE  166 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST-TTTTC--------------------CCTTSHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHh
Confidence            788899999999999999999999999998643 233333333              22 37788899999999999998


Q ss_pred             CCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhh
Q 022131          178 DGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVT  257 (302)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  257 (302)
                      ..  +.+...+..+...+...|++++|.+.++++.+. .+.+...+..+...+...|++++|...++++.+.. +.+..+
T Consensus       167 ~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~  242 (327)
T 3cv0_A          167 MN--PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL-RPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRV  242 (327)
T ss_dssp             HS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             hC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHH
Confidence            86  568899999999999999999999999999876 34468889999999999999999999999998752 335678


Q ss_pred             HHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          258 FETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       258 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      +..+...+...|++++|.+.+++..+...
T Consensus       243 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          243 MYNMAVSYSNMSQYDLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            88999999999999999999998776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.4e-16  Score=122.20  Aligned_cols=227  Identities=10%  Similarity=0.031  Sum_probs=194.6

Q ss_pred             HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCC--
Q 022131           34 VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGIC--  111 (302)
Q Consensus        34 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--  111 (302)
                      ...+..+...+..          .|++++|+..|++..+..  .+...+..+..++...|++++|...+++..+....  
T Consensus         5 a~~~~~~g~~~~~----------~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~   72 (258)
T 3uq3_A            5 ADKEKAEGNKFYK----------ARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMR   72 (258)
T ss_dssp             HHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHH----------hccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccc
Confidence            4567777888888          888999999999999887  68899999999999999999999999998775321  


Q ss_pred             cC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHH
Q 022131          112 PT----VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHS  187 (302)
Q Consensus       112 ~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  187 (302)
                      ++    ..++..+...+...|++++|...+++..+..  |+.       ..+...|+++++...++.+....  +.+...
T Consensus        73 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~  141 (258)
T 3uq3_A           73 ADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN--PEKAEE  141 (258)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC--HHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC--cchHHH
Confidence            12    5788999999999999999999999999863  443       34666788999999999999875  566778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhh
Q 022131          188 YNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQ  267 (302)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  267 (302)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++..
T Consensus       142 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  219 (258)
T 3uq3_A          142 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIA  219 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHH
Confidence            8999999999999999999999998863 4578899999999999999999999999998753 3357788889999999


Q ss_pred             cchHHHHHHHHHhccccC
Q 022131          268 SDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       268 ~g~~~~a~~~~~~~~~~~  285 (302)
                      .|++++|...+++..+..
T Consensus       220 ~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          220 VKEYASALETLDAARTKD  237 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHhC
Confidence            999999999999877654

>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=99.76  E-value=1.3e-18  Score=139.82  Aligned_cols=222  Identities=11%  Similarity=0.131  Sum_probs=85.9

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      +.|++++|.++++++.      ++.+|..+..++.+          .+++++|++.|.+.      +|..+|..++..+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~----------~g~~~eAIdsfika------~D~~~y~~V~~~ae   72 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQ----------KGMVKEAIDSYIKA------DDPSSYMEVVQAAN   72 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHH----------cCCHHHHHHHHHcC------CCHHHHHHHHHHHH
Confidence            5677888888888882      33588888888888          78888888888652      47778888888888


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMK  170 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  170 (302)
                      ..|++++|+.+++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|..
T Consensus        73 ~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~  143 (449)
T 1b89_A           73 TSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKL  143 (449)
T ss_dssp             --------------------------------------CHHHHTTTTT-------CC----------------CTTTHHH
T ss_pred             hCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            889999999877776664  3456778888889999999888887774       2677788889999999999999998


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 022131          171 LYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  250 (302)
                      .|..+          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|+..|+++.|......+    
T Consensus       144 ~Y~~a----------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L----  203 (449)
T 1b89_A          144 LYNNV----------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI----  203 (449)
T ss_dssp             HHHHT----------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT----
T ss_pred             HHHHh----------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH----
Confidence            88866          25788888889999999998888887      27788888889999999998886554432    


Q ss_pred             CCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          251 LLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       251 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                       ..++.-...++..|.+.|.+++|..+++.....
T Consensus       204 -~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~l  236 (449)
T 1b89_A          204 -VVHADELEELINYYQDRGYFEELITMLEAALGL  236 (449)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             -HhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCC
Confidence             233333556788888888888888888775543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.75  E-value=1.1e-16  Score=124.05  Aligned_cols=247  Identities=9%  Similarity=-0.025  Sum_probs=193.4

Q ss_pred             hcCCcchHHHHHHHHHhCCC---cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGV---EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLH   87 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   87 (302)
                      ..|++++|++.|+++.+...   +.+..++..+...+..          .|++++|...|+++.+.. +.+..++..+..
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~~~~~~A~~~~~~al~~~-~~~~~~~~~la~   85 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDS----------LGLRALARNDFSQALAIR-PDMPEVFNYLGI   85 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHH----------cccHHHHHHHHHHHHHcC-CCcHHHHHHHHH
Confidence            45789999999999988632   2246678888888888          888999999999999874 346889999999


Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchH
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG  167 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  167 (302)
                      .+...|++++|...++++.+... .+..++..+..+|.+.|++++|...++++.+..  |+.......+..+...|++++
T Consensus        86 ~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~  162 (275)
T 1xnf_A           86 YLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQ  162 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHH
Confidence            99999999999999999998753 367889999999999999999999999998863  454445555556677899999


Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          168 AMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP---DLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      |...+.+.....  +++...+. ++..+...++.++|...+..........   +...+..+..++...|++++|...|+
T Consensus       163 A~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  239 (275)
T 1xnf_A          163 AKEVLKQHFEKS--DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFK  239 (275)
T ss_dssp             HHHHHHHHHHHS--CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999998887764  44544444 6777778888899999999887642111   25788889999999999999999999


Q ss_pred             HHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHH
Q 022131          245 EMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLK  278 (302)
Q Consensus       245 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  278 (302)
                      +..+.  .|+.  +.....++...|++++|.+.+
T Consensus       240 ~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          240 LAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            99874  4533  233455778889999887765

>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=99.74  E-value=2.1e-15  Score=115.40  Aligned_cols=203  Identities=10%  Similarity=-0.026  Sum_probs=140.7

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE  158 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  158 (302)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            4566677777777777777777777777654 33566777777777777777777777777776532 356677777777


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      +...|++++|...++++.+.+..+.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++
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            777777777777777777622213355666777777777777777777777776652 3356677777777777777777


Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          239 ACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       239 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      |...++++.+. .+.+...+..+...+...|+.++|.++++++.+..
T Consensus       194 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            77777777653 23345566666777777777777777777766543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.74  E-value=3.7e-15  Score=111.83  Aligned_cols=201  Identities=7%  Similarity=-0.035  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC
Q 022131           34 VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT  113 (302)
Q Consensus        34 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  113 (302)
                      ...+..+...+..          .|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+
T Consensus         8 ~~~~~~~~~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~   75 (225)
T 2vq2_A            8 SNIKTQLAMEYMR----------GQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDS   75 (225)
T ss_dssp             HHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHHH----------HhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCC
Confidence            3445555555555          555666666666665543 2245556666666666666666666666665543 224


Q ss_pred             HHHHHHHHHHHhcc-CCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH
Q 022131          114 VATYSSVVKCLCSC-GRIEDAEELLGEMVRNGVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL  191 (302)
Q Consensus       114 ~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  191 (302)
                      ..++..+...+... |++++|...++++.+.+..| +...+..+...+...|++++|...+.++.+..  +.+...+..+
T Consensus        76 ~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l  153 (225)
T 2vq2_A           76 AEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKEL  153 (225)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHH
Confidence            55556666666666 66666666666665521112 24455555566666666666666666665553  3445555666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          192 IGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ...+...|++++|...++++.+.....+...+..+...+...|+.+.|..+++.+.+
T Consensus       154 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          154 ARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            666666666666666666655542113455555555555666666666666665544

>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=99.74  E-value=3.6e-17  Score=131.60  Aligned_cols=232  Identities=9%  Similarity=0.024  Sum_probs=110.5

Q ss_pred             ChHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHH
Q 022131            1 MYTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      +|+.|..++.+.|++++|++.|.+.      +|..+|..++.++..          .|++++|++.++...+.  .+++.
T Consensus        34 vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~----------~g~~EeAi~yl~~ark~--~~~~~   95 (449)
T 1b89_A           34 VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANT----------SGNWEELVKYLQMARKK--ARESY   95 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHh----------CCCHHHHHHHHHHHHHh--Cccch
Confidence            5889999999999999999999653      577799999999988          89999999988777664  45678


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..++.++.
T Consensus        96 i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~  159 (449)
T 1b89_A           96 VETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLV  159 (449)
T ss_dssp             -------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHH
Confidence            89999999999999999988885       367789999999999999999999999976         48999999999


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      +.|++++|.+.++++       .++.+|..++.+|...|+++.|......     +..++.....++..|.+.|.+++|.
T Consensus       160 ~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai  227 (449)
T 1b89_A          160 HLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELI  227 (449)
T ss_dssp             TTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHH
Confidence            999999999999988       2678999999999999999999665443     2334555667999999999999999


Q ss_pred             HHHHHHHHCCCCCchhhHHHHHHHHh--hcchHHHHHHHHH
Q 022131          241 QYFVEMIEKGLLPQKVTFETLYRGLI--QSDMLRTWRRLKK  279 (302)
Q Consensus       241 ~~~~~~~~~~~~p~~~~~~~l~~~~~--~~g~~~~a~~~~~  279 (302)
                      .+++...... +-....|+-+..+++  +.++..+..+.|.
T Consensus       228 ~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~  267 (449)
T 1b89_A          228 TMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW  267 (449)
T ss_dssp             HHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS
T ss_pred             HHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999886543 334455665555555  4455555555543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.74  E-value=4.8e-16  Score=116.35  Aligned_cols=201  Identities=13%  Similarity=0.019  Sum_probs=162.8

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI  110 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  110 (302)
                      +++...+..+...+.+          .|++++|+..|++..+.. +.+...+..+..++.+.|++++|...+++..+...
T Consensus         2 p~~~~~~~~lg~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P   70 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYA----------LGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP   70 (217)
T ss_dssp             --CCHHHHHHHHHHHH----------TTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             CCcHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            5677788888888888          888999999999999875 44788999999999999999999999999998863


Q ss_pred             CcCHHHHHHHHHHHhcc-----------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          111 CPTVATYSSVVKCLCSC-----------GRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       111 ~~~~~~~~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                       .+...+..+..++.+.           |++++|+..+++..+..+ -+...+..+..++...|++++|...|++..+..
T Consensus        71 -~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  148 (217)
T 2pl2_A           71 -RYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE  148 (217)
T ss_dssp             -TCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             -CcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc
Confidence             3778899999999999           999999999999998743 467889999999999999999999999999885


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          180 LCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                         .+...+..+..++...|++++|...+++..+. .+.+...+..+...+...|++++|+..+++...
T Consensus       149 ---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          149 ---DTPEIRSALAELYLSMGRLDEALAQYAKALEQ-APKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             ---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHTC----------------
T ss_pred             ---cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence               67888999999999999999999999999886 244778889999999999999999999987643

>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=99.74  E-value=4.6e-15  Score=113.52  Aligned_cols=197  Identities=10%  Similarity=0.063  Sum_probs=169.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .+++++|...|+++.+.. +.+...+..+...+...|++++|.+.++++.+... .+...+..+...+...|++++|...
T Consensus        50 ~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~  127 (252)
T 2ho1_A           50 RGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFLYEQKRYEEAYQR  127 (252)
T ss_dssp             TTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHHhHHHHHHHH
Confidence            456788999999998874 44788999999999999999999999999988753 3788899999999999999999999


Q ss_pred             HHHHHHCCCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022131          137 LGEMVRNGVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG  215 (302)
Q Consensus       137 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (302)
                      ++++.+.+..| +...+..+...+...|++++|...+.++.+..  +.+...+..+...+...|++++|...++.+.+. 
T Consensus       128 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-  204 (252)
T 2ho1_A          128 LLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPARQYYDLFAQG-  204 (252)
T ss_dssp             HHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            99998832334 56788888999999999999999999999875  567889999999999999999999999999886 


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH
Q 022131          216 LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFET  260 (302)
Q Consensus       216 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  260 (302)
                      .+.+...+..+...+...|++++|.+.++++.+.  .|+...+..
T Consensus       205 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~  247 (252)
T 2ho1_A          205 GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQE  247 (252)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHH
T ss_pred             CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHH
Confidence            3457788889999999999999999999999874  465544443

>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=99.73  E-value=8.4e-15  Score=118.43  Aligned_cols=245  Identities=9%  Similarity=0.029  Sum_probs=197.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHH-HHHHHHHHHHHHhcCCCCCHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKT-IRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      |+.+...+.+.|++++|++.+++.+... +-+...|+.+..++..          .++ +++|+..|++...... -+..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~----------~g~d~~eAl~~~~~al~l~P-~~~~  167 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKS----------LQKDLHEEMNYITAIIEEQP-KNYQ  167 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------TTCCHHHHHHHHHHHHHHCT-TCHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHH----------cccCHHHHHHHHHHHHHHCC-CCHH
Confidence            5567778888999999999999998863 3356788888888888          775 8999999999998753 3788


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      .|+.+..++...|++++|+..|+++.+.... +...|..+..++.+.|++++|+..++++++... -+...|+.+..++.
T Consensus       168 a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~  245 (382)
T 2h6f_A          168 VWHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVIS  245 (382)
T ss_dssp             HHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            9999999999999999999999999988643 788999999999999999999999999998754 47888999999988


Q ss_pred             c-cCCchHH-----HHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 022131          161 G-RKDANGA-----MKLYRQMKEDGLCVPNMHSYNILIGMFMALN--RMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE  232 (302)
Q Consensus       161 ~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  232 (302)
                      . .|..++|     +..+++..+..  +-+...|..+...+...|  +.++|.+.+.++ +. .+.+...+..+..+|.+
T Consensus       246 ~l~~~~~eA~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~  321 (382)
T 2h6f_A          246 NTTGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYED  321 (382)
T ss_dssp             HTTCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHH
T ss_pred             HhcCcchHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHH
Confidence            8 6665777     48888888875  667888999888888888  688999999888 33 34567788888888888


Q ss_pred             cC---------CHHHHHHHHHHH-HHCCCCCch-hhHHHHHHHHh
Q 022131          233 KQ---------KWKEACQYFVEM-IEKGLLPQK-VTFETLYRGLI  266 (302)
Q Consensus       233 ~g---------~~~~a~~~~~~~-~~~~~~p~~-~~~~~l~~~~~  266 (302)
                      .|         ..++|+++++++ .+  +.|.. ..|..+...+.
T Consensus       322 ~~~~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          322 MLENQCDNKEDILNKALELCEILAKE--KDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHTTCSSHHHHHHHHHHHHHHHHHT--TCGGGHHHHHHHHHHHH
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHH--hCchhHHHHHHHHHHHH
Confidence            64         358999999998 55  34544 34444444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.73  E-value=6.6e-15  Score=110.44  Aligned_cols=206  Identities=9%  Similarity=-0.053  Sum_probs=175.5

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+... .+..++..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~   83 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHH
Confidence            356788889999999999999999999998875 34688899999999999999999999999988643 4678899999


Q ss_pred             HHHHcc-CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          157 KEYRGR-KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       157 ~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                      ..+... |++++|...++++.+.+..+.+...+..+...+...|++++|...++++.+.. +.+...+..+..++...|+
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            999999 99999999999999833213446788899999999999999999999988863 3468889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          236 WKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       236 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +++|...++++.+..-..+...+..+...+...|+.+++..+++.+.+..
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999999875211466677777888889999999999999887543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.72  E-value=4.5e-15  Score=114.90  Aligned_cols=231  Identities=10%  Similarity=0.035  Sum_probs=167.6

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC--HHH
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD--VTS   81 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~   81 (302)
                      .....+...|++++|+..|++..+.. +.+...+..+...+..          .|++++|+..+++..+.+..|+  ...
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~----------~~~~~~A~~~~~~a~~~~~~~~~~~~~   76 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYE----------LAKYDLAQKDIETYFSKVNATKAKSAD   76 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHH----------TTCHHHHHHHHHHHHTTSCTTTCCHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH----------HhhHHHHHHHHHHHHhccCchhHHHHH
Confidence            44566778888888888888887763 2344577777777777          7778888888888887432222  334


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      |..+...+...|++++|...+++..+... .+..++..+...|...|++++|...+++..+.. +.+...+..+...+..
T Consensus        77 ~~~lg~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  154 (272)
T 3u4t_A           77 FEYYGKILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYY  154 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHH
Confidence            77888888888888888888888877653 356778888888888888888888888887763 2456666666634444


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCC-CCCC------HHHHHHHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR---MDMVREIWNDVKGSG-LGPD------LDSYTMLIHGLC  231 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~  231 (302)
                      .+++++|...++++.+..  +.+...+..+...+...|+   +++|...+++..+.. ..|+      ...|..+...|.
T Consensus       155 ~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  232 (272)
T 3u4t_A          155 NKEYVKADSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYT  232 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHH
Confidence            558888888888888775  4557777777777777777   777877777766531 1122      256777778888


Q ss_pred             HcCCHHHHHHHHHHHHHC
Q 022131          232 EKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~  249 (302)
                      ..|++++|.+.+++..+.
T Consensus       233 ~~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          233 INRDKVKADAAWKNILAL  250 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc
Confidence            888888888888888774

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=1.9e-15  Score=114.97  Aligned_cols=201  Identities=9%  Similarity=0.047  Sum_probs=131.2

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      ....|..+...+..          .+++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.
T Consensus        22 ~~~~~~~~a~~~~~----------~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~   89 (243)
T 2q7f_A           22 ASMTGGQQMGRGSE----------FGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SS   89 (243)
T ss_dssp             ------------------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHHHHH----------hhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-Cc
Confidence            34445555555655          677777777777777653 3356677777777777888888888887777664 23


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +..++..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++++.+..  +.+...+..+.
T Consensus        90 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~  166 (243)
T 2q7f_A           90 AATAYYGAGNVYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFG  166 (243)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHH
Confidence            566777777777777888888888877776542 456677777777777888888888887777664  45667777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          193 GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ..+...|++++|...++++.+. .+.+..++..+..++...|++++|...++++.+.
T Consensus       167 ~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          167 MCLANEGMLDEALSQFAAVTEQ-DPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            7777778888888877777665 2345667777777777778888888887777663

>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=99.71  E-value=5.5e-14  Score=108.98  Aligned_cols=226  Identities=11%  Similarity=-0.018  Sum_probs=196.3

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCchhHHHHHHHHHhc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR----AHQPQLSLDKLNFMKEK  108 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~  108 (302)
                      +..++..+-..+..          .+++++|+..|++..+.+   +...+..+...+..    .+++++|...|++..+.
T Consensus         5 ~~~a~~~lg~~~~~----------~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~   71 (273)
T 1ouv_A            5 DPKELVGLGAKSYK----------EKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL   71 (273)
T ss_dssp             CHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHh----------CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC
Confidence            55667777777877          778899999999998843   56788889999999    99999999999999988


Q ss_pred             CCCcCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCchHHHHHHHHHHhCCC
Q 022131          109 GICPTVATYSSVVKCLCS----CGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG----RKDANGAMKLYRQMKEDGL  180 (302)
Q Consensus       109 ~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  180 (302)
                      +   +...+..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...+++..+.+ 
T Consensus        72 ~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-  144 (273)
T 1ouv_A           72 N---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN-  144 (273)
T ss_dssp             T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT-
T ss_pred             C---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC-
Confidence            6   67888899999999    999999999999999874   77888999999998    999999999999999875 


Q ss_pred             CCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCC
Q 022131          181 CVPNMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE----KQKWKEACQYFVEMIEKGLL  252 (302)
Q Consensus       181 ~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~  252 (302)
                         +...+..+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...+++..+.+  
T Consensus       145 ---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--  216 (273)
T 1ouv_A          145 ---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--  216 (273)
T ss_dssp             ---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--
T ss_pred             ---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC--
Confidence               55677888888888    899999999999998863   56788889999999    999999999999998864  


Q ss_pred             CchhhHHHHHHHHhh----cchHHHHHHHHHhccccCCC
Q 022131          253 PQKVTFETLYRGLIQ----SDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       253 p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~  287 (302)
                       +...+..+...+..    .++.++|.+.+++..+.+..
T Consensus       217 -~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          217 -NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             -CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             -CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCH
Confidence             25677778888888    99999999999998877654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=1.9e-15  Score=114.99  Aligned_cols=208  Identities=10%  Similarity=0.020  Sum_probs=164.8

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..+...+...|++++|...|+++.+.. +.+...+..+...+..          .+++++|+..|+++.+.. +.+...
T Consensus        26 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~----------~~~~~~A~~~~~~~~~~~-~~~~~~   93 (243)
T 2q7f_A           26 GGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSS----------VNELERALAFYDKALELD-SSAATA   93 (243)
T ss_dssp             ----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHcC-CcchHH
Confidence            4556777889999999999999998863 4467788888888888          888999999999998874 347888


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      +..+...+...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+... .+...+..+...+..
T Consensus        94 ~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~  171 (243)
T 2q7f_A           94 YYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLAN  171 (243)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHH
Confidence            9999999999999999999999998875 34788899999999999999999999999988643 467889999999999


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTML  226 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  226 (302)
                      .|++++|...+.++.+..  +.+..++..+..++...|++++|.+.++++.+.. +.+...+..+
T Consensus       172 ~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~  233 (243)
T 2q7f_A          172 EGMLDEALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ-PDHMLALHAK  233 (243)
T ss_dssp             HTCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC-cchHHHHHHH
Confidence            999999999999998885  5678899999999999999999999999998852 2344444433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.71  E-value=4.8e-15  Score=114.73  Aligned_cols=236  Identities=10%  Similarity=-0.028  Sum_probs=191.6

Q ss_pred             HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc--
Q 022131           35 VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP--  112 (302)
Q Consensus        35 ~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--  112 (302)
                      ..+......+..          .|++++|+..|++..+.. +.+...+..+..++...|++++|...+++..+....+  
T Consensus         4 ~~~~~~a~~~~~----------~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~   72 (272)
T 3u4t_A            4 DVEFRYADFLFK----------NNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKA   72 (272)
T ss_dssp             -CHHHHHHHHHT----------TTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTC
T ss_pred             HHHHHHHHHHHH----------hcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhH
Confidence            344555566777          788999999999999874 3356688889999999999999999999998843222  


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      ...+|..+...+...|++++|...+++..+... .+..++..+...+...|++++|...+++..+..  +.+...+..+.
T Consensus        73 ~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~  149 (272)
T 3u4t_A           73 KSADFEYYGKILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT--TTDPKVFYELG  149 (272)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS--CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC--CCcHHHHHHHH
Confidence            244588999999999999999999999998743 467889999999999999999999999998875  66778888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCC-CCCch------hhHHHHH
Q 022131          193 GMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK---WKEACQYFVEMIEKG-LLPQK------VTFETLY  262 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~p~~------~~~~~l~  262 (302)
                      ..+...+++++|.+.++++.+.. +.+...+..+..++...|+   +++|...+++..+.. -.|+.      .++..+.
T Consensus       150 ~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  228 (272)
T 3u4t_A          150 QAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIA  228 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHH
Confidence            34445569999999999998862 3457788888888888888   888999999887641 22432      5777888


Q ss_pred             HHHhhcchHHHHHHHHHhccccC
Q 022131          263 RGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ..+...|++++|.+.+++..+..
T Consensus       229 ~~~~~~~~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          229 YYYTINRDKVKADAAWKNILALD  251 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC
Confidence            89999999999999999987655

>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=99.69  E-value=1.1e-14  Score=117.67  Aligned_cols=230  Identities=9%  Similarity=0.003  Sum_probs=193.7

Q ss_pred             HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-chhHHHHHHHHHhcCCCc
Q 022131           34 VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQ-PQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        34 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~  112 (302)
                      ...|..+...+..          .+++++|+..|++..... +-+...|+.+..++...|+ +++|+..++++.+.... 
T Consensus        97 ~~a~~~lg~~~~~----------~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-  164 (382)
T 2h6f_A           97 RDVYDYFRAVLQR----------DERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-  164 (382)
T ss_dssp             HHHHHHHHHHHHH----------TCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-
T ss_pred             HHHHHHHHHHHHH----------CCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-
Confidence            3567777777777          677899999999999875 3368899999999999997 99999999999998644 


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +...|..+..++.+.|++++|+..|+++++... -+...|..+..++...|++++|+..++++.+..  +.+...|+.+.
T Consensus       165 ~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~~~~a~~~lg  241 (382)
T 2h6f_A          165 NYQVWHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRY  241 (382)
T ss_dssp             CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            788999999999999999999999999998754 478899999999999999999999999999987  67889999999


Q ss_pred             HHHHh-cCCHHHH-----HHHHHHHHhCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCchhhHHHHHHH
Q 022131          193 GMFMA-LNRMDMV-----REIWNDVKGSGLGPDLDSYTMLIHGLCEKQ--KWKEACQYFVEMIEKGLLPQKVTFETLYRG  264 (302)
Q Consensus       193 ~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  264 (302)
                      .++.. .|..++|     ...+++..... +-+...|+.+...+...|  ++++|++.+.++ + ....+...+..+...
T Consensus       242 ~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~  318 (382)
T 2h6f_A          242 FVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDI  318 (382)
T ss_dssp             HHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHH
T ss_pred             HHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHH
Confidence            99999 6665777     48888887752 346788888888888888  689999999888 3 233456778888888


Q ss_pred             Hhhcc---------hHHHHHHHHHhc
Q 022131          265 LIQSD---------MLRTWRRLKKKL  281 (302)
Q Consensus       265 ~~~~g---------~~~~a~~~~~~~  281 (302)
                      +.+.|         ..++|.++++++
T Consensus       319 ~~~~~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          319 YEDMLENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHHHHHTTCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHhcccccchHHHHHHHHHHHHHH
Confidence            88874         358999999998

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.69  E-value=1e-14  Score=113.00  Aligned_cols=222  Identities=7%  Similarity=-0.097  Sum_probs=181.7

Q ss_pred             HHHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGI---EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      .+++++|+..|+++.+...   +.+..++..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            6899999999999998632   1246788899999999999999999999999875 34788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          134 EELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      ...+++..+... .+..++..+...+...|++++|...++++.+..   |+.......+..+...|++++|...+++...
T Consensus        97 ~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           97 YEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD---PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            999999998743 467889999999999999999999999999874   4434444455566777999999999988777


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--C-chhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          214 SGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLL--P-QKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       214 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      . .+++...+ .++..+...++.++|...+.+..+....  | +..++..+...+...|++++|...+++..+..
T Consensus       173 ~-~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          173 K-SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             H-SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             c-CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            5 23444444 4777778888999999999988653211  1 15778889999999999999999999988765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.69  E-value=3.4e-14  Score=118.80  Aligned_cols=219  Identities=9%  Similarity=0.002  Sum_probs=188.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCc-hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQP-QLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEE  135 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  135 (302)
                      .+.++++++.+++..... +.+...+..+...+...|++ ++|.+.|++..+... .+...|..+..+|.+.|++++|..
T Consensus        81 ~~~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           81 QEEMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            566788888888876653 34788999999999999999 999999999988753 368899999999999999999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHcc---------CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc--------
Q 022131          136 LLGEMVRNGVCPSAETYNCFFKEYRGR---------KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL--------  198 (302)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  198 (302)
                      .|++..+..  |+...+..+...+...         |++++|...+++..+..  +.+...|..+..+|...        
T Consensus       159 ~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~  234 (474)
T 4abn_A          159 CFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNP  234 (474)
T ss_dssp             HHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhcccc
Confidence            999999874  6678899999999999         99999999999999886  67789999999999998        


Q ss_pred             CCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHH
Q 022131          199 NRMDMVREIWNDVKGSGLG--PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRR  276 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  276 (302)
                      |++++|...|++..+....  .+...|..+..+|...|++++|.+.|++..+.. +-+...+..+..++...|+.++|.+
T Consensus       235 g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          235 KISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             HHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999885210  378899999999999999999999999998752 2345678888899999999999987


Q ss_pred             HHHhcc
Q 022131          277 LKKKLD  282 (302)
Q Consensus       277 ~~~~~~  282 (302)
                      .+.++.
T Consensus       314 ~~~~~~  319 (474)
T 4abn_A          314 SKGKTK  319 (474)
T ss_dssp             HTTTCC
T ss_pred             Hhcccc
Confidence            665543

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.67  E-value=3.2e-13  Score=104.62  Aligned_cols=224  Identities=10%  Similarity=0.021  Sum_probs=188.9

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      +..+-..+...|++++|.+.|++..+.+   +...+..+...+......      .+++++|...|++..+.+   +...
T Consensus         9 ~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~------~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            9 LVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGV------EKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS------CCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCc------CCCHHHHHHHHHHHHHCC---CHHH
Confidence            3456677888999999999999998843   445666666666651110      456789999999999875   7888


Q ss_pred             HHHHHHHHHh----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCChhhHH
Q 022131           82 FSIVLHVYSR----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRIEDAEELLGEMVRNGVCPSAETYN  153 (302)
Q Consensus        82 ~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (302)
                      +..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+.
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHH
Confidence            8999999999    999999999999999875   67888999999998    999999999999999875   567788


Q ss_pred             HHHHHHHc----cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022131          154 CFFKEYRG----RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGLGPDLDSYTM  225 (302)
Q Consensus       154 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (302)
                      .+...|..    .+++++|...+++..+.+    +...+..+...|..    .+++++|...+++..+.+   +...+..
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  223 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK----DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFN  223 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHH
Confidence            88888888    999999999999998874    45778888899999    999999999999998864   3678888


Q ss_pred             HHHHHHH----cCCHHHHHHHHHHHHHCC
Q 022131          226 LIHGLCE----KQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       226 li~~~~~----~g~~~~a~~~~~~~~~~~  250 (302)
                      +...|..    .+++++|.+.|++..+.|
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            8899988    999999999999998864

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.67  E-value=1.5e-15  Score=124.69  Aligned_cols=270  Identities=11%  Similarity=-0.004  Sum_probs=204.9

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccH----HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----C-
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNV----VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----G-   74 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~-   74 (302)
                      .+...+...|++++|+..|+++.+.+.. +.    ..+..+...+..          .|++++|+..|++..+.    + 
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~----------~g~~~~A~~~~~~al~~~~~~~~  121 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFY----------LGDYNKAMQYHKHDLTLAKSMND  121 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHHHHHccC
Confidence            4556778999999999999999886322 22    467778888888          77888888888877653    1 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----C-CCcCHHHHHHHHHHHhccCC-----------------HHH
Q 022131           75 IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----G-ICPTVATYSSVVKCLCSCGR-----------------IED  132 (302)
Q Consensus        75 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~~~~-----------------~~~  132 (302)
                      .+....++..+...+...|++++|...+++..+.    + .+....++..+...|...|+                 +++
T Consensus       122 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~  201 (411)
T 4a1s_A          122 RLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTR  201 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHH
Confidence            1224567888999999999999999999988654    1 12235578888999999999                 999


Q ss_pred             HHHHHHHHHHC----CC-CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHH
Q 022131          133 AEELLGEMVRN----GV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDM  203 (302)
Q Consensus       133 a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~  203 (302)
                      |...+++..+.    +. .....++..+...+...|++++|...+++..+.....++    ...+..+...+...|++++
T Consensus       202 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  281 (411)
T 4a1s_A          202 AVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFED  281 (411)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHH
Confidence            99999887643    11 112457788889999999999999999988765210112    2377888999999999999


Q ss_pred             HHHHHHHHHhCCC--C---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CchhhHHHHHHHHhhcchHHH
Q 022131          204 VREIWNDVKGSGL--G---PDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLL-PQKVTFETLYRGLIQSDMLRT  273 (302)
Q Consensus       204 a~~~~~~~~~~~~--~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~g~~~~  273 (302)
                      |...+++......  .   ....++..+...+...|++++|...+++..+.    +.. ....++..+...+...|++++
T Consensus       282 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  361 (411)
T 4a1s_A          282 AAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHER  361 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHH
Confidence            9999998775311  0   12467888899999999999999999998753    111 123477888899999999999


Q ss_pred             HHHHHHhcccc
Q 022131          274 WRRLKKKLDEE  284 (302)
Q Consensus       274 a~~~~~~~~~~  284 (302)
                      |.+.+++..+.
T Consensus       362 A~~~~~~al~~  372 (411)
T 4a1s_A          362 ALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999886654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.66  E-value=1.5e-13  Score=108.51  Aligned_cols=220  Identities=10%  Similarity=0.033  Sum_probs=178.8

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-------cCCc-------hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR-------AHQP-------QLSLDKLNFMKEKGICPTVATYSSVVKCLCS  126 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  126 (302)
                      ++|..+|++..... +.+...|..++..+..       .|++       ++|..+|++..+.-.+-+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888999988863 4477888888887763       5886       8999999999984123367789999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCC-hh-hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH-hcCCHHH
Q 022131          127 CGRIEDAEELLGEMVRNGVCPS-AE-TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFM-ALNRMDM  203 (302)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~  203 (302)
                      .|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|++..+..  +++...|........ ..|+.++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999985  343 33 89999999999999999999999999875  455555554444322 3699999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCc--hhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          204 VREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG-LLPQ--KVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      |..+|++..+. .+-+...|..++..+.+.|++++|..+|++..+.. +.|+  ...|..++......|+.++|..++++
T Consensus       188 A~~~~~~al~~-~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999998875 34478899999999999999999999999999863 4553  46788888889999999999999998


Q ss_pred             ccccCC
Q 022131          281 LDEESI  286 (302)
Q Consensus       281 ~~~~~~  286 (302)
                      +.+...
T Consensus       267 a~~~~p  272 (308)
T 2ond_A          267 RFTAFR  272 (308)
T ss_dssp             HHHHTT
T ss_pred             HHHHcc
Confidence            776543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=9.2e-14  Score=101.04  Aligned_cols=171  Identities=16%  Similarity=0.085  Sum_probs=141.1

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      ++.+|..+...+.+.|++++|++.|++..+... -+..++..+..+|.+.|++++|...++....... .+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            677888899999999999999999999888753 3777888888999999999999999988887643 45677777778


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      .+...++++.+...+.+.....  +.+...+..+...+.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|+++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            8888899999999998888875  5677888888888999999999999999888752 346778888888899999999


Q ss_pred             HHHHHHHHHHHCCCCCch
Q 022131          238 EACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~  255 (302)
                      +|++.|++..+.  .|+.
T Consensus       159 ~A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          159 EAVKYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHHHHHHHT--THHH
T ss_pred             HHHHHHHHHHhC--CccC
Confidence            999999988773  4543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.65  E-value=3.3e-13  Score=106.52  Aligned_cols=226  Identities=8%  Similarity=-0.012  Sum_probs=179.8

Q ss_pred             chHHHHHHHHHhCCCcccHHHHHHHHHHHHhc-------ccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 022131           16 DMAERFLGEMIERGVEPNVVTYNVLLNGVCRR-------ASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHV   88 (302)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-------~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   88 (302)
                      ++|..+|++.... .+-+...|..+...+...       |+....   .+..++|..+|++....-.+.+...|..++..
T Consensus        33 ~~a~~~~~~al~~-~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~---~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~  108 (308)
T 2ond_A           33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNA---KLFSDEAANIYERAISTLLKKNMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHH---HHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhchhhhhccchhhc---ccchHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            6888999999876 245677888888777542       322111   34468999999999983123356789999999


Q ss_pred             HHhcCCchhHHHHHHHHHhcCCCcCHH-HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH-ccCCch
Q 022131           89 YSRAHQPQLSLDKLNFMKEKGICPTVA-TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR-GRKDAN  166 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~  166 (302)
                      +.+.|++++|..+|+++.+.... +.. +|..++..+.+.|++++|..+|++..+... ++...|........ ..|+.+
T Consensus       109 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~  186 (308)
T 2ond_A          109 EESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHH
T ss_pred             HHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999986422 343 899999999999999999999999998743 34555554443322 379999


Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHHcCCHHHHHHHH
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG-LGP--DLDSYTMLIHGLCEKQKWKEACQYF  243 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~  243 (302)
                      +|..+|++..+..  +.+...|..++..+.+.|+.++|..+|++..... .+|  ....|..++......|+.+.|..++
T Consensus       187 ~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~  264 (308)
T 2ond_A          187 VAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVE  264 (308)
T ss_dssp             HHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998875  5678899999999999999999999999999863 354  4678999999999999999999999


Q ss_pred             HHHHHC
Q 022131          244 VEMIEK  249 (302)
Q Consensus       244 ~~~~~~  249 (302)
                      +++.+.
T Consensus       265 ~~a~~~  270 (308)
T 2ond_A          265 KRRFTA  270 (308)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999874

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.64  E-value=5e-15  Score=121.22  Aligned_cols=269  Identities=10%  Similarity=-0.003  Sum_probs=202.3

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCccc----HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----CC
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPN----VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----GI   75 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~   75 (302)
                      .....+...|++++|...|++..+.+. .+    ...+..+...+..          .|++++|...+++....    +.
T Consensus        14 ~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~al~~~~~~~~   82 (406)
T 3sf4_A           14 LEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFY----------LHDYAKALEYHHHDLTLARTIGD   82 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHH----------hcCHHHHHHHHHHHHHHHHhccc
Confidence            455678899999999999999988632 22    3567778888888          67778888888776542    21


Q ss_pred             CC-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC-----CcCHHHHHHHHHHHhccCC--------------------
Q 022131           76 EP-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI-----CPTVATYSSVVKCLCSCGR--------------------  129 (302)
Q Consensus        76 ~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~ll~~~~~~~~--------------------  129 (302)
                      .| ...++..+...+...|++++|...+++..+...     .....++..+...|...|+                    
T Consensus        83 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~  162 (406)
T 3sf4_A           83 QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDA  162 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHH
Confidence            22 255788889999999999999999998865411     1124478888899999999                    


Q ss_pred             HHHHHHHHHHHHHC----CC-CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCC
Q 022131          130 IEDAEELLGEMVRN----GV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNR  200 (302)
Q Consensus       130 ~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~  200 (302)
                      +++|...+++..+.    +. .....++..+...+...|++++|...+++..+.....++    ..++..+...+...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999887643    11 112457788888999999999999999988754210122    3378888899999999


Q ss_pred             HHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-chhhHHHHHHHHhhcch
Q 022131          201 MDMVREIWNDVKGSGL-GPD----LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLP-QKVTFETLYRGLIQSDM  270 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~  270 (302)
                      +++|...+++...... .++    ..++..+...+...|++++|...+++..+.    +-.+ ...++..+...+...|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            9999999998765311 011    567888899999999999999999998753    1111 14577888899999999


Q ss_pred             HHHHHHHHHhccc
Q 022131          271 LRTWRRLKKKLDE  283 (302)
Q Consensus       271 ~~~a~~~~~~~~~  283 (302)
                      +++|.+.+++..+
T Consensus       323 ~~~A~~~~~~al~  335 (406)
T 3sf4_A          323 HDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.63  E-value=6.8e-15  Score=117.10  Aligned_cols=271  Identities=11%  Similarity=-0.004  Sum_probs=201.4

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCccc----HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----CC
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPN----VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----GI   75 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~   75 (302)
                      .....+...|++++|...|+++.+... .+    ...+..+...+..          .|++++|.+.+++....    +.
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~al~~~~~~~~   78 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFY----------LHDYAKALEYHHHDLTLARTIGD   78 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHhhcccc
Confidence            345677899999999999999988632 22    3567778888888          67778888887776542    11


Q ss_pred             C-CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC-CcC----HHHHHHHHHHHhccCC--------------------
Q 022131           76 E-PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI-CPT----VATYSSVVKCLCSCGR--------------------  129 (302)
Q Consensus        76 ~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~ll~~~~~~~~--------------------  129 (302)
                      . ....++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    
T Consensus        79 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  158 (338)
T 3ro2_A           79 QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNA  158 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHH
Confidence            1 2356788899999999999999999998765411 112    3478888899999999                    


Q ss_pred             HHHHHHHHHHHHHC----CC-CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC----CHHHHHHHHHHHHhcCC
Q 022131          130 IEDAEELLGEMVRN----GV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP----NMHSYNILIGMFMALNR  200 (302)
Q Consensus       130 ~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~  200 (302)
                      +++|...+++....    +. .....++..+...+...|++++|...+++..+.....+    ...++..+...+...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            99999999886542    11 11245778888899999999999999998865421011    13377888899999999


Q ss_pred             HHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CchhhHHHHHHHHhhcch
Q 022131          201 MDMVREIWNDVKGSGL-GPD----LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLL-PQKVTFETLYRGLIQSDM  270 (302)
Q Consensus       201 ~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~g~  270 (302)
                      +++|...+++..+... .++    ..++..+...+...|++++|...+++..+.    +-. ....++..+...+...|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            9999999998765311 111    567788889999999999999999988653    111 123467788899999999


Q ss_pred             HHHHHHHHHhccccC
Q 022131          271 LRTWRRLKKKLDEES  285 (302)
Q Consensus       271 ~~~a~~~~~~~~~~~  285 (302)
                      +++|...+++..+..
T Consensus       319 ~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          319 HDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHHH
Confidence            999999999876543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=7.2e-13  Score=110.78  Aligned_cols=198  Identities=11%  Similarity=-0.045  Sum_probs=106.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhC-----C---CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIER-----G---VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR   73 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~-----~---~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   73 (302)
                      ||.|-..+...|++++|++.|++..+.     +   .+....+|+.+..+|..          .|++++|...+++....
T Consensus        54 yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~----------~g~~~~A~~~~~ka~~i  123 (472)
T 4g1t_A           54 CNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYH----------MGRLSDVQIYVDKVKHV  123 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHH----------cCChHHHHHHHHHHHHH
Confidence            788889999999999999999987542     1   22345678888888888          45555555555544331


Q ss_pred             -----C--CCCCHHHHHHHHHHHHhc--CCchhHHHHHHHHHhcCCCcCHHHHHHHHHH---HhccCCHHHHHHHHHHHH
Q 022131           74 -----G--IEPDVTSFSIVLHVYSRA--HQPQLSLDKLNFMKEKGICPTVATYSSVVKC---LCSCGRIEDAEELLGEMV  141 (302)
Q Consensus        74 -----~--~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~  141 (302)
                           +  ......+++.+..++...  +++++|+..|++..+.... +...+..+..+   +...++.++|+..+++..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al  202 (472)
T 4g1t_A          124 CEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAI  202 (472)
T ss_dssp             HHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHH
T ss_pred             hHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHh
Confidence                 0  011234444444444332  3466666666666655321 33344333333   223345555555555555


Q ss_pred             HCCCCCChhhHHHHHHHHH----ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          142 RNGVCPSAETYNCFFKEYR----GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       142 ~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      +... .+..++..+...+.    ..++.++|.+.+++.....  +.+...+..+...+...|++++|...+++..+
T Consensus       203 ~l~p-~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  275 (472)
T 4g1t_A          203 RLNP-DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA--PGVTDVLRSAAKFYRRKDEPDKAIELLKKALE  275 (472)
T ss_dssp             HHCS-SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcCC-cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC--ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            4422 23333333333322    2344455555555555543  44455555555556666666666655555554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.60  E-value=4.6e-13  Score=97.31  Aligned_cols=167  Identities=10%  Similarity=0.068  Sum_probs=149.8

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      ++..|..+-..+..          .|++++|++.|++..+.. +-+..++..+..++.+.|++++|...+........ .
T Consensus         4 ~~~iy~~lG~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~   71 (184)
T 3vtx_A            4 TTTIYMDIGDKKRT----------KGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-T   71 (184)
T ss_dssp             CHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-C
T ss_pred             HHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-h
Confidence            56788899999999          899999999999999875 33788999999999999999999999999988753 3


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +...+..+...+...++++.|...+++..+... .+...+..+...+...|++++|++.|++..+..  +.+..++..+.
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg  148 (184)
T 3vtx_A           72 SAEAYYILGSANFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK--PGFIRAYQSIG  148 (184)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc--chhhhHHHHHH
Confidence            677888888999999999999999999988643 467889999999999999999999999999886  67889999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 022131          193 GMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      .++.+.|++++|.+.|++..+.
T Consensus       149 ~~~~~~g~~~~A~~~~~~al~~  170 (184)
T 3vtx_A          149 LAYEGKGLRDEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhC
Confidence            9999999999999999999874

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.60  E-value=1.3e-11  Score=103.79  Aligned_cols=210  Identities=12%  Similarity=0.074  Sum_probs=130.5

Q ss_pred             HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCC
Q 022131           58 KTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGR  129 (302)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~  129 (302)
                      ++.++|.+.|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..+...|..    .++
T Consensus       201 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d  274 (490)
T 2xm6_A          201 RNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKE  274 (490)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCC
T ss_pred             cCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCC
Confidence            34455555555555443   34444555555543    455666666666655543   33444455555554    566


Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc-----CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC---CH
Q 022131          130 IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR-----KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN---RM  201 (302)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~  201 (302)
                      .++|..+|++..+.|   +...+..+...|...     +++++|...+++..+.+    +...+..+...|...|   +.
T Consensus       275 ~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~y~~~g~~~~~  347 (490)
T 2xm6_A          275 PLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG----DATAQANLGAIYFRLGSEEEH  347 (490)
T ss_dssp             HHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHSCCHHHH
T ss_pred             HHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCcccH
Confidence            666666666666542   344555556666555     67777777777766654    3345555666665545   66


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhh----cchHHH
Q 022131          202 DMVREIWNDVKGSGLGPDLDSYTMLIHGLCE----KQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQ----SDMLRT  273 (302)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  273 (302)
                      ++|.+.|++..+.   .+...+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .++.++
T Consensus       348 ~~A~~~~~~a~~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~  421 (490)
T 2xm6_A          348 KKAVEWFRKAAAK---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQ  421 (490)
T ss_dssp             HHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            7777777777765   356677777777777    678888888888877754   45566667777766    678888


Q ss_pred             HHHHHHhccccCC
Q 022131          274 WRRLKKKLDEESI  286 (302)
Q Consensus       274 a~~~~~~~~~~~~  286 (302)
                      |..++++..+.+.
T Consensus       422 A~~~~~~A~~~~~  434 (490)
T 2xm6_A          422 AWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCC
Confidence            8888887776663

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.59  E-value=2.6e-11  Score=102.01  Aligned_cols=110  Identities=12%  Similarity=0.032  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCH
Q 022131           59 TIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRI  130 (302)
Q Consensus        59 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~  130 (302)
                      ++++|...|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .++.
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~  203 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERND  203 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCH
Confidence            3444444444444433   33334444444443    344444555444444432   33344444444443    4444


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCchHHHHHHHHHHh
Q 022131          131 EDAEELLGEMVRNGVCPSAETYNCFFKEYRG----RKDANGAMKLYRQMKE  177 (302)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~  177 (302)
                      ++|..+|++..+.|   +...+..+...|..    .+++++|...|++..+
T Consensus       204 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~  251 (490)
T 2xm6_A          204 AISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE  251 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            44444444444432   23333333333332    3444444444444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.59  E-value=6.3e-14  Score=117.20  Aligned_cols=214  Identities=8%  Similarity=-0.040  Sum_probs=181.7

Q ss_pred             cchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 022131           15 IDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTI-RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH   93 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   93 (302)
                      ++++++.++..... .+.+...+..+...+..          .+++ ++|++.|++..+.. +.+...|..+..+|.+.|
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~----------~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  151 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNV----------TPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKG  151 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTS----------SSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHh----------ccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC
Confidence            55666666665544 23467788888888888          7788 99999999998874 336889999999999999


Q ss_pred             CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhcc---------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc--
Q 022131           94 QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSC---------GRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR--  162 (302)
Q Consensus        94 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  162 (302)
                      ++++|.+.|++..+..  |+...+..+...+...         |++++|+..+++..+... .+...|..+..+|...  
T Consensus       152 ~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~  228 (474)
T 4abn_A          152 DVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYF  228 (474)
T ss_dssp             CHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHH
Confidence            9999999999999875  6678899999999999         999999999999998743 4688899999999988  


Q ss_pred             ------CCchHHHHHHHHHHhCCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 022131          163 ------KDANGAMKLYRQMKEDGLCV---PNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK  233 (302)
Q Consensus       163 ------~~~~~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  233 (302)
                            |++++|...|++..+..  +   .+...+..+..+|...|++++|.+.|++..+.. +.+...+..+..++...
T Consensus       229 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~l  305 (474)
T 4abn_A          229 NTGQNPKISQQALSAYAQAEKVD--RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFL  305 (474)
T ss_dssp             HTTCCHHHHHHHHHHHHHHHHHC--GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             hhccccchHHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHH
Confidence                  99999999999999874  4   588999999999999999999999999998862 34667888899999999


Q ss_pred             CCHHHHHHHHHHH
Q 022131          234 QKWKEACQYFVEM  246 (302)
Q Consensus       234 g~~~~a~~~~~~~  246 (302)
                      |++++|++.+.++
T Consensus       306 g~~~eAi~~~~~~  318 (474)
T 4abn_A          306 SRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHTTTC
T ss_pred             HHHHHHHHHhccc
Confidence            9999998866543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=1.1e-13  Score=109.06  Aligned_cols=206  Identities=13%  Similarity=0.061  Sum_probs=152.0

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhc-------CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC------C
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK-------GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN------G  144 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~  144 (302)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+...|...|++++|...+++..+.      +
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            4567788888888888888888888888763       22334566778888888888888888888887654      1


Q ss_pred             -CCCChhhHHHHHHHHHccCCchHHHHHHHHHHhC------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 022131          145 -VCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED------GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS---  214 (302)
Q Consensus       145 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  214 (302)
                       .+....++..+...+...|++++|...+.+..+.      +..+.....+..+...+...|++++|.+.++++.+.   
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             1223567777888888888888888888887764      211233456777888888888888888888887653   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----------------------------------------
Q 022131          215 ---GLGP-DLDSYTMLIHGLCEKQKWKEACQYFVEMIEK-----------------------------------------  249 (302)
Q Consensus       215 ---~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----------------------------------------  249 (302)
                         +..| ...++..+..++...|++++|...++++.+.                                         
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 2456777888888888998888888887652                                         


Q ss_pred             -------CCCCchhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          250 -------GLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       250 -------~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                             ..+.+..++..+..+|...|++++|.+++++..+
T Consensus       266 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          266 WYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                   1122446788889999999999999999988654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.58  E-value=9.3e-14  Score=109.45  Aligned_cols=208  Identities=12%  Similarity=0.021  Sum_probs=164.5

Q ss_pred             cccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-------CCCCCHHHHHHHHHHHHhcCCchhHHHHHH
Q 022131           31 EPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-------GIEPDVTSFSIVLHVYSRAHQPQLSLDKLN  103 (302)
Q Consensus        31 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  103 (302)
                      +.+..++..+...+..          .|++++|...|+++.+.       ..+.....+..+...+...|++++|...++
T Consensus        24 ~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~   93 (311)
T 3nf1_A           24 PARLRTLHNLVIQYAS----------QGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLN   93 (311)
T ss_dssp             CHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            3356678888888888          77788888888887763       223356788899999999999999999999


Q ss_pred             HHHhc------CC-CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC------CC-CCChhhHHHHHHHHHccCCchHHH
Q 022131          104 FMKEK------GI-CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN------GV-CPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus       104 ~~~~~------~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      +..+.      +. +....++..+...|...|++++|...+++..+.      +. +.....+..+...+...|++++|.
T Consensus        94 ~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  173 (311)
T 3nf1_A           94 DALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVE  173 (311)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHH
Confidence            88764      22 234567889999999999999999999998764      21 224567888889999999999999


Q ss_pred             HHHHHHHhC------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----------------------------
Q 022131          170 KLYRQMKED------GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS-----------------------------  214 (302)
Q Consensus       170 ~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------------------  214 (302)
                      ..+++..+.      +..+....++..+...+...|++++|.+.++++.+.                             
T Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (311)
T 3nf1_A          174 YYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGK  253 (311)
T ss_dssp             HHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCc
Confidence            999998775      211334567888999999999999999999988752                             


Q ss_pred             -------------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          215 -------------------GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       215 -------------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                                         ..+.+..++..+..+|...|++++|...+++..+
T Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          254 QKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                               1122456788899999999999999999999875

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.56  E-value=1e-11  Score=103.86  Aligned_cols=269  Identities=11%  Similarity=0.000  Sum_probs=191.2

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhC-----C-Cc-ccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIER-----G-VE-PNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG   74 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~-~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~   74 (302)
                      |+.+...|...|++++|...+++..+.     + .. ....++.....++...+        .+++++|+..|++..+..
T Consensus        97 ~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~--------~~~y~~A~~~~~kal~~~  168 (472)
T 4g1t_A           97 WGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCG--------GNQNERAKVCFEKALEKK  168 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHC--------TTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHc--------cccHHHHHHHHHHHHHhC
Confidence            667788899999999999999987653     1 11 12345555554555422        467899999999999874


Q ss_pred             CCCCHHHHHHHHHH---HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCC
Q 022131           75 IEPDVTSFSIVLHV---YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRIEDAEELLGEMVRNGVCP  147 (302)
Q Consensus        75 ~~~~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~  147 (302)
                      . -+...+..+..+   +...++.++|++.+++..+... .+..++..+...+..    .+++++|...+++...... .
T Consensus       169 p-~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~  245 (472)
T 4g1t_A          169 P-KNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-G  245 (472)
T ss_dssp             T-TCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-S
T ss_pred             C-CCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-c
Confidence            2 245555555544   3456778899999999888753 356666666555443    4678899999999887643 5


Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc-------------------CCHHHHHHHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL-------------------NRMDMVREIW  208 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~  208 (302)
                      +..++..+...|...|++++|...+.+..+..  +.+..++..+..+|...                   +..+.|...+
T Consensus       246 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  323 (472)
T 4g1t_A          246 VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHL  323 (472)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHH
Confidence            67888999999999999999999999999885  56677777776665432                   2356778888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchh--hHHHHHH-HHhhcchHHHHHHHHHhcccc
Q 022131          209 NDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKV--TFETLYR-GLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       209 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~--~~~~l~~-~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ++..+.. +.+...+..+...+...|++++|...|++..+....|...  .+..+.. .....|+.++|...+++..+.
T Consensus       324 ~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          324 KKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             HHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS
T ss_pred             HHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            8777652 3456778889999999999999999999998864333221  2222222 234678999999998876553

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=1.6e-11  Score=104.21  Aligned_cols=217  Identities=10%  Similarity=0.047  Sum_probs=151.1

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-------cCCch-------hHHHHHHHHHhcCCCcCHHHHHHHHHHHhcc
Q 022131           62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSR-------AHQPQ-------LSLDKLNFMKEKGICPTVATYSSVVKCLCSC  127 (302)
Q Consensus        62 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  127 (302)
                      ++..+|++..... +.+...|..++..+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            4455666666542 3356677777776665       57776       7888888887622233577788888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH-HHhcCCHHHH
Q 022131          128 GRIEDAEELLGEMVRNGVCPS--AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM-FMALNRMDMV  204 (302)
Q Consensus       128 ~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  204 (302)
                      |++++|..+|+++.+.  .|+  ...|..++..+.+.|+.++|..+|++..+..  +.+...+...... +...|+.++|
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~~~~~~~~~a~~~~~~~~~~~~A  410 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVA  410 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--TCCTHHHHHHHHHHHHHTCCHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--CCchHHHHHHHHHHHHHcCChhHH
Confidence            8888888888888875  333  2478888888888888888888888888764  2333333332222 3357888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCc--hhhHHHHHHHHhhcchHHHHHHHHHhc
Q 022131          205 REIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG-LLPQ--KVTFETLYRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~  281 (302)
                      ..+|+...+. .+.+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+.+..+.+++
T Consensus       411 ~~~~e~al~~-~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          411 FKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHH-HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888887765 23467788888888888888888888888887752 2232  236667777777788888888887776


Q ss_pred             ccc
Q 022131          282 DEE  284 (302)
Q Consensus       282 ~~~  284 (302)
                      .+.
T Consensus       490 ~~~  492 (530)
T 2ooe_A          490 FTA  492 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            553

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.54  E-value=8.4e-12  Score=101.14  Aligned_cols=268  Identities=9%  Similarity=-0.047  Sum_probs=189.2

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCcccHH----HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCC-CCC--
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPNVV----TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGI-EPD--   78 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~--   78 (302)
                      ...+...|++++|...+++........+..    .++.+...+..          .|++++|...+++...... .++  
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~al~~~~~~~~~~   90 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHC----------KGELTRSLALMQQTEQMARQHDVWH   90 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHh----------cCcHHHHHHHHHHHHHHHHhcCcHH
Confidence            345667899999999999988763222222    34555566666          7788888888888765311 112  


Q ss_pred             --HHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCC--c-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC--
Q 022131           79 --VTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GIC--P-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP--  147 (302)
Q Consensus        79 --~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--  147 (302)
                        ..++..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++..+.....  
T Consensus        91 ~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  170 (373)
T 1hz4_A           91 YALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQP  170 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCG
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCc
Confidence              234667888899999999999999988654    221  2 34456778888999999999999999987643211  


Q ss_pred             --ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC-HHHHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-
Q 022131          148 --SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN-MHSYN----ILIGMFMALNRMDMVREIWNDVKGSGLGPD-  219 (302)
Q Consensus       148 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-  219 (302)
                        ...++..+...+...|++++|...+++.......... .....    ..+..+...|+.++|...++........++ 
T Consensus       171 ~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~  250 (373)
T 1hz4_A          171 QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNH  250 (373)
T ss_dssp             GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCG
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcch
Confidence              2356777888899999999999999998754210111 11111    233457789999999999998876432211 


Q ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCch-hhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          220 --LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLPQK-VTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       220 --~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                        ...+..+...+...|++++|...+++..+.    |..++. ..+..+..++...|+.++|...+++..+
T Consensus       251 ~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          251 FLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence              234667788899999999999999988643    222233 3566677888899999999998887554

>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=99.54  E-value=2.1e-12  Score=93.56  Aligned_cols=165  Identities=13%  Similarity=0.036  Sum_probs=116.6

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE  158 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  158 (302)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+... .+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            3456666777777788888888777776553 23566777777777777888888887777776532 356667777777


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      +...|++++|...++++.+..  +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHH
Confidence            777777777777777777664  4566677777777777777777777777766652 3456677777777777777777


Q ss_pred             HHHHHHHHHH
Q 022131          239 ACQYFVEMIE  248 (302)
Q Consensus       239 a~~~~~~~~~  248 (302)
                      |...++++.+
T Consensus       163 A~~~~~~~~~  172 (186)
T 3as5_A          163 ALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777655

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.53  E-value=3e-13  Score=104.94  Aligned_cols=226  Identities=13%  Similarity=0.050  Sum_probs=158.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc------CC-CcCHHHHHHHHHHHhccCC
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK------GI-CPTVATYSSVVKCLCSCGR  129 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~ll~~~~~~~~  129 (302)
                      ...+++|++++++....+.+....++..+...+...|++++|...++++.+.      +- +....++..+...|...|+
T Consensus        21 ~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  100 (283)
T 3edt_B           21 VPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGK  100 (283)
T ss_dssp             HHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhcc
Confidence            5567778888887775443445678999999999999999999999998765      22 2345678899999999999


Q ss_pred             HHHHHHHHHHHHHC------C-CCCChhhHHHHHHHHHccCCchHHHHHHHHHHhC------CCCCCCHHHHHHHHHHHH
Q 022131          130 IEDAEELLGEMVRN------G-VCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED------GLCVPNMHSYNILIGMFM  196 (302)
Q Consensus       130 ~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~  196 (302)
                      +++|...+++..+.      . .+....++..+...+...|++++|...+++..+.      +..+....++..+...+.
T Consensus       101 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  180 (283)
T 3edt_B          101 YKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYL  180 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence            99999999998764      1 1234677888899999999999999999998775      111334567888999999


Q ss_pred             hcCCHHHHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHcCC------HHHHHHHHHHHHHCCCCCchhhHHHHH
Q 022131          197 ALNRMDMVREIWNDVKGS-------GLGPD-LDSYTMLIHGLCEKQK------WKEACQYFVEMIEKGLLPQKVTFETLY  262 (302)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~li~~~~~~g~------~~~a~~~~~~~~~~~~~p~~~~~~~l~  262 (302)
                      ..|++++|...+++..+.       ...+. ...+..+.......+.      +..+...++.... ..+....++..+.
T Consensus       181 ~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~la  259 (283)
T 3edt_B          181 KQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPTVNTTLRSLG  259 (283)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHH
Confidence            999999999999987753       11222 2333333333333222      2222222222111 1122345778888


Q ss_pred             HHHhhcchHHHHHHHHHhccc
Q 022131          263 RGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ..+...|++++|..++++..+
T Consensus       260 ~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          260 ALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999988654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.52  E-value=4.4e-11  Score=101.59  Aligned_cols=265  Identities=11%  Similarity=0.123  Sum_probs=175.2

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..++. +.+.|++++|..+|+++.+. .|-+...|..++..+.+          .+++++|..+|+++...  .|+...
T Consensus        16 w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~----------~~~~~~a~~~~~ral~~--~p~~~l   81 (530)
T 2ooe_A           16 WSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIK----------AKNYDKVEKLFQRCLMK--VLHIDL   81 (530)
T ss_dssp             HHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHTTT--CCCHHH
T ss_pred             HHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHh----------cCCHHHHHHHHHHHHhc--CCChHH
Confidence            555666 46789999999999999876 45567788999988888          77888999999998876  357777


Q ss_pred             HHHHHHHH-HhcCCchhHHH----HHHHHHhc-CCC-cCHHHHHHHHHHHhc---------cCCHHHHHHHHHHHHHCCC
Q 022131           82 FSIVLHVY-SRAHQPQLSLD----KLNFMKEK-GIC-PTVATYSSVVKCLCS---------CGRIEDAEELLGEMVRNGV  145 (302)
Q Consensus        82 ~~~ll~~~-~~~~~~~~a~~----~~~~~~~~-~~~-~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~  145 (302)
                      |...+... ...|+.+.|.+    +|+..... |.. ++...|...+....+         .|+++.|..+|++..+...
T Consensus        82 w~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~  161 (530)
T 2ooe_A           82 WKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPM  161 (530)
T ss_dssp             HHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchh
Confidence            77766533 34567776655    56655443 433 245666666665543         5677777777777665211


Q ss_pred             CCChhhHHH-----------------------------------------------------------------HHHHHH
Q 022131          146 CPSAETYNC-----------------------------------------------------------------FFKEYR  160 (302)
Q Consensus       146 ~~~~~~~~~-----------------------------------------------------------------l~~~~~  160 (302)
                      .+....|..                                                                 .+....
T Consensus       162 ~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~  241 (530)
T 2ooe_A          162 INIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEK  241 (530)
T ss_dssp             TTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHH
Confidence            000122211                                                                 111100


Q ss_pred             cc----CCc----hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHhCCCCC
Q 022131          161 GR----KDA----NGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA-------LNRMD-------MVREIWNDVKGSGLGP  218 (302)
Q Consensus       161 ~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~  218 (302)
                      ..    ++.    ..+..+|++.....  +.+...|..++..+.+       .|+++       +|..++++..+.-.+.
T Consensus       242 ~~~~~~~~~~~~~~~a~~~y~~al~~~--p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~  319 (530)
T 2ooe_A          242 SNPLRTEDQTLITKRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK  319 (530)
T ss_dssp             HCSSCCSCSHHHHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSS
T ss_pred             cCCccCCcchhHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcc
Confidence            00    111    13445555555543  4566677777776665       67776       8888888887631344


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch--hhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          219 DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK--VTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       219 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      +...|..++..+.+.|++++|..+|+++.+.  .|+.  ..|..++..+.+.|+.++|..++++..+.
T Consensus       320 ~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~  385 (530)
T 2ooe_A          320 NMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  385 (530)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            6778888888888888899999988888873  4542  46777777778888888888888887664

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.52  E-value=6.1e-12  Score=102.39  Aligned_cols=230  Identities=8%  Similarity=-0.026  Sum_probs=127.9

Q ss_pred             HHhcCCcchHHHHHHHHHhC--CCccc--HHHHHHHHHHHHhcccCCcchhhHHHHHHHH-----------HHHHHHHhc
Q 022131            9 WCKINRIDMAERFLGEMIER--GVEPN--VVTYNVLLNGVCRRASLHPSERFEKTIRNAE-----------KVFDEMRVR   73 (302)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~--~~~~~--~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~-----------~~~~~~~~~   73 (302)
                      +.+.+++++|..+++++.+.  .++.|  ...|-.++..-...-        .+.++.+.           +.++.+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~--------~~~~~~~~~~~~e~~~~~~~~~~~i~~~   93 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLM--------LEYLEPLEKMRIEEQPRLSDLLLEIDKK   93 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHH--------HHHHGGGGGSCGGGSCCHHHHHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHH--------HhhcCcccccccccccchhhHHHHHHhc
Confidence            45789999999999998765  23233  334444443322100        23333333           444444332


Q ss_pred             CCCCCHHH------HHHHHHHHHhcCCchhHHHHHHHHHhc----CCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           74 GIEPDVTS------FSIVLHVYSRAHQPQLSLDKLNFMKEK----GICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        74 ~~~~~~~~------~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      .  ++...      +......+...|++++|...+++..+.    +-++ ...++..+...|...|++++|...+++..+
T Consensus        94 ~--~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~  171 (383)
T 3ulq_A           94 Q--ARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYE  171 (383)
T ss_dssp             T--HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C--CCchhHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1  11111      122445566677777777777776553    1111 234566666777777777777777766654


Q ss_pred             CCCC-C-----ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          143 NGVC-P-----SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       143 ~~~~-~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      .... +     ...+++.+...|...|++++|...+.+..+.....++    ..++..+...|...|++++|.+.+++..
T Consensus       172 ~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al  251 (383)
T 3ulq_A          172 IYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAI  251 (383)
T ss_dssp             HHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3100 1     1345566666677777777777777666543110111    2356666667777777777777776665


Q ss_pred             hC----CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          213 GS----GL-GPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       213 ~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +.    +. +....++..+...+...|++++|...+++..+
T Consensus       252 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          252 AVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            51    22 22345566666777777777777777766543

>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=99.51  E-value=3.2e-12  Score=92.60  Aligned_cols=167  Identities=13%  Similarity=0.047  Sum_probs=145.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                      ...+..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++++.+..  +.+...+..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA--PDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHH
Confidence            45677788899999999999999999887643 467888999999999999999999999998875  667889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHH
Q 022131          194 MFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRT  273 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  273 (302)
                      .+...|++++|.+.++++.+. .+.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEA-NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhc-CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998876 34578889999999999999999999999998753 3456788889999999999999


Q ss_pred             HHHHHHhccccC
Q 022131          274 WRRLKKKLDEES  285 (302)
Q Consensus       274 a~~~~~~~~~~~  285 (302)
                      |...+++..+..
T Consensus       163 A~~~~~~~~~~~  174 (186)
T 3as5_A          163 ALPHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC
Confidence            999999876643

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.50  E-value=3e-12  Score=104.19  Aligned_cols=224  Identities=11%  Similarity=0.028  Sum_probs=170.7

Q ss_pred             HHHHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC--C----CcCHHHHHHHHHHHh
Q 022131           57 EKTIRNAEKVFDEMRVR----GIEP-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG--I----CPTVATYSSVVKCLC  125 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~~ll~~~~  125 (302)
                      .|++++|...|++..+.    +-.+ ...++..+...+...|+++.|...+++..+..  .    +....++..+...|.
T Consensus       116 ~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~  195 (383)
T 3ulq_A          116 QREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFL  195 (383)
T ss_dssp             TTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHH
Confidence            78899999999998764    1111 34678899999999999999999999886541  1    112457888999999


Q ss_pred             ccCCHHHHHHHHHHHHHCCCC-C----ChhhHHHHHHHHHccCCchHHHHHHHHHHh-----CCCCCCCHHHHHHHHHHH
Q 022131          126 SCGRIEDAEELLGEMVRNGVC-P----SAETYNCFFKEYRGRKDANGAMKLYRQMKE-----DGLCVPNMHSYNILIGMF  195 (302)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~~l~~~~  195 (302)
                      ..|++++|...+++..+.... +    ...++..+...|...|++++|...+++..+     ... +....++..+...+
T Consensus       196 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~l~~~~  274 (383)
T 3ulq_A          196 DLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNIL-PSLPQAYFLITQIH  274 (383)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCG-GGHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccc-hhHHHHHHHHHHHH
Confidence            999999999999988754111 1    124788899999999999999999999887     321 23466788899999


Q ss_pred             HhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCc-hhhHHHHHHHHhh
Q 022131          196 MALNRMDMVREIWNDVKGS----GLGPDLDSYTMLIHGLCEKQK---WKEACQYFVEMIEKGLLPQ-KVTFETLYRGLIQ  267 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  267 (302)
                      .+.|++++|...+++..+.    +.+.....+..+...+...|+   +++|+.++++.   +..|+ ...+..+...|..
T Consensus       275 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~  351 (383)
T 3ulq_A          275 YKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHE  351 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHH
Confidence            9999999999999987653    111223345667778888888   77777777665   33333 3567778899999


Q ss_pred             cchHHHHHHHHHhcccc
Q 022131          268 SDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       268 ~g~~~~a~~~~~~~~~~  284 (302)
                      .|++++|...+++..+.
T Consensus       352 ~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          352 RKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            99999999999886653

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.50  E-value=1.2e-11  Score=93.14  Aligned_cols=196  Identities=10%  Similarity=-0.012  Sum_probs=141.3

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      .|+..+......+...|++++|...|++..+...+++...+..+..++...|++++|+..+++..+... .+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHH
Confidence            356788888888999999999999999988876546777777788889999999999999999887643 3567888888


Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHH
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNM-------HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD---LDSYTML  226 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l  226 (302)
                      .++...|++++|...+++..+..  +.+.       ..|..+...+...|++++|.+.+++..+.  .|+   ...+..+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l  159 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHH
Confidence            89999999999999999988875  4455       45777778888889999999999998875  454   5667777


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          227 IHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      ..++...|+.     .++++...+ ..+...+....  ....+.+++|...+++..+..
T Consensus       160 ~~~~~~~~~~-----~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          160 GVLFYNNGAD-----VLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHH-----HHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            7777655443     333333321 11222232222  234455667777766655543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=4.5e-13  Score=109.58  Aligned_cols=260  Identities=11%  Similarity=-0.015  Sum_probs=190.3

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhC----CCcc-cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC--
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIER----GVEP-NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG--   74 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--   74 (302)
                      |..+...+...|++++|...+++....    +..| ...++..+...+..          .|++++|...+++.....  
T Consensus        50 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~----------~g~~~~A~~~~~~al~~~~~  119 (406)
T 3sf4_A           50 YSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKV----------LGNFDEAIVCCQRHLDISRE  119 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHHHh
Confidence            556778899999999999999987543    2222 24567777778888          677788888877766531  


Q ss_pred             --C-CCCHHHHHHHHHHHHhcCC--------------------chhHHHHHHHHHhc----CC-CcCHHHHHHHHHHHhc
Q 022131           75 --I-EPDVTSFSIVLHVYSRAHQ--------------------PQLSLDKLNFMKEK----GI-CPTVATYSSVVKCLCS  126 (302)
Q Consensus        75 --~-~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~  126 (302)
                        . .....++..+...+...|+                    +++|...+++..+.    +. +....++..+...|..
T Consensus       120 ~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  199 (406)
T 3sf4_A          120 LNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYL  199 (406)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHH
Confidence              0 1124578889999999999                    99999998877543    21 1124468888999999


Q ss_pred             cCCHHHHHHHHHHHHHCCC-CCC----hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHh
Q 022131          127 CGRIEDAEELLGEMVRNGV-CPS----AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMA  197 (302)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~  197 (302)
                      .|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+.....++    ..++..+...+..
T Consensus       200 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  279 (406)
T 3sf4_A          200 LGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTL  279 (406)
T ss_dssp             HTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHH
Confidence            9999999999998875411 112    347888889999999999999999988654210111    5677888999999


Q ss_pred             cCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-chhhHHHHHHHHhh
Q 022131          198 LNRMDMVREIWNDVKGSGL-GPD----LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLP-QKVTFETLYRGLIQ  267 (302)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~  267 (302)
                      .|++++|...+++..+... .++    ..++..+...|...|++++|...+++..+.    +..+ ...++..+...+..
T Consensus       280 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  359 (406)
T 3sf4_A          280 LQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMV  359 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHH
Confidence            9999999999998765311 112    567888899999999999999999987653    2122 23556667777777


Q ss_pred             cchH
Q 022131          268 SDML  271 (302)
Q Consensus       268 ~g~~  271 (302)
                      .|+.
T Consensus       360 ~g~~  363 (406)
T 3sf4_A          360 LGLS  363 (406)
T ss_dssp             HHTT
T ss_pred             hhHh
Confidence            7765

>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=99.49  E-value=3.7e-12  Score=111.01  Aligned_cols=166  Identities=13%  Similarity=0.103  Sum_probs=149.4

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      +...++.|...+.+.|++++|++.|++..+.... +..++..+..+|.+.|++++|+..|++..+... -+..+|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            4678999999999999999999999999988533 688999999999999999999999999998743 46789999999


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      ++...|++++|.+.|++..+..  +.+...+..+..++...|++++|.+.|++..+.. +-+...+..+..++...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~--P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN--PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHH
Confidence            9999999999999999999886  6778999999999999999999999999998862 346788999999999999999


Q ss_pred             HHHHHHHHHHH
Q 022131          238 EACQYFVEMIE  248 (302)
Q Consensus       238 ~a~~~~~~~~~  248 (302)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.47  E-value=4e-13  Score=110.27  Aligned_cols=239  Identities=10%  Similarity=0.041  Sum_probs=181.1

Q ss_pred             HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCCchhHHHHHHHHHhc--
Q 022131           35 VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDV----TSFSIVLHVYSRAHQPQLSLDKLNFMKEK--  108 (302)
Q Consensus        35 ~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--  108 (302)
                      ..+..+...+..          .|++++|+..|+++.+.+.. +.    ..+..+...+...|++++|...+++..+.  
T Consensus        49 ~~l~~~g~~~~~----------~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~  117 (411)
T 4a1s_A           49 LELALEGERLCN----------AGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAK  117 (411)
T ss_dssp             HHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH----------hCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            344445556666          78899999999999987422 33    57888999999999999999999988654  


Q ss_pred             --C-CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----C-CCCChhhHHHHHHHHHccCC----------------
Q 022131          109 --G-ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN----G-VCPSAETYNCFFKEYRGRKD----------------  164 (302)
Q Consensus       109 --~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~----------------  164 (302)
                        + .+....++..+...|...|++++|...+++..+.    + ......++..+...|...|+                
T Consensus       118 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~  197 (411)
T 4a1s_A          118 SMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKE  197 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHH
T ss_pred             HccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhH
Confidence              1 1224567888999999999999999999987754    1 11234578888889999999                


Q ss_pred             -chHHHHHHHHHHhC----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcC
Q 022131          165 -ANGAMKLYRQMKED----GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL-GPD----LDSYTMLIHGLCEKQ  234 (302)
Q Consensus       165 -~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g  234 (302)
                       +++|...+.+..+.    +.......++..+...+...|++++|...+++..+... .++    ...+..+...+...|
T Consensus       198 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  277 (411)
T 4a1s_A          198 ALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLG  277 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCc
Confidence             99999988876543    11012234778888999999999999999998776311 012    237888899999999


Q ss_pred             CHHHHHHHHHHHHHCCC----C-CchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          235 KWKEACQYFVEMIEKGL----L-PQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~----~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      ++++|...+++..+..-    . ....++..+...+...|++++|...+++..+.
T Consensus       278 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          278 QFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999998875311    0 12467788889999999999999999886553

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.47  E-value=1.1e-11  Score=96.90  Aligned_cols=239  Identities=13%  Similarity=0.037  Sum_probs=166.4

Q ss_pred             chHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCc
Q 022131           16 DMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQP   95 (302)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   95 (302)
                      .+|.+++.+..+. .+++...| .++    +..  .     .+++++|...|++.               ...|...|++
T Consensus         2 ~~a~~~~~~a~k~-~~~~~~~~-~~~----~~~--~-----~~~~~~A~~~~~~a---------------~~~~~~~g~~   53 (292)
T 1qqe_A            2 SDPVELLKRAEKK-GVPSSGFM-KLF----SGS--D-----SYKFEEAADLCVQA---------------ATIYRLRKEL   53 (292)
T ss_dssp             CCHHHHHHHHHHH-SSCCCTHH-HHH----SCC--S-----HHHHHHHHHHHHHH---------------HHHHHHTTCT
T ss_pred             CcHHHHHHHHHHH-hCcCCCcc-hhc----CCC--C-----CccHHHHHHHHHHH---------------HHHHHHcCCH
Confidence            4677888877765 23322233 332    210  0     23488888888776               3457788999


Q ss_pred             hhHHHHHHHHHhc----CCCcC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC---C--ChhhHHHHHHHHHcc-CC
Q 022131           96 QLSLDKLNFMKEK----GICPT-VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC---P--SAETYNCFFKEYRGR-KD  164 (302)
Q Consensus        96 ~~a~~~~~~~~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~-~~  164 (302)
                      ++|...|.+..+.    |-+++ ..+|+.+..+|.+.|++++|+..+++..+....   +  ...++..+...|... |+
T Consensus        54 ~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~  133 (292)
T 1qqe_A           54 NLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHD  133 (292)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcC
Confidence            9999999887654    32222 567899999999999999999999988754111   1  145788888899996 99


Q ss_pred             chHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHHcC
Q 022131          165 ANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL------DSYTMLIHGLCEKQ  234 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g  234 (302)
                      +++|...|++..+......+    ..++..+...+.+.|++++|...+++..+.......      ..|..+..++...|
T Consensus       134 ~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g  213 (292)
T 1qqe_A          134 YAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAAT  213 (292)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcC
Confidence            99999999998765210111    356888899999999999999999999885332221      15677888899999


Q ss_pred             CHHHHHHHHHHHHHCCCCCchh------hHHHHHHHHh--hcchHHHHHHHHHhcccc
Q 022131          235 KWKEACQYFVEMIEKGLLPQKV------TFETLYRGLI--QSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~p~~~------~~~~l~~~~~--~~g~~~~a~~~~~~~~~~  284 (302)
                      ++++|...+++..+  +.|+..      .+..++.++.  ..+++++|...++++.+.
T Consensus       214 ~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l  269 (292)
T 1qqe_A          214 DAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (292)
T ss_dssp             CHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             CHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCcc
Confidence            99999999999865  334321      3444556664  456788888888776543

>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=99.46  E-value=2.7e-11  Score=91.10  Aligned_cols=155  Identities=6%  Similarity=-0.115  Sum_probs=131.6

Q ss_pred             cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH
Q 022131          112 PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL  191 (302)
Q Consensus       112 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  191 (302)
                      .|+..+......+...|++++|+..|++..+...+++...+..+..++...|++++|...+++..+..  +.+...+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN--YNLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--CSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC--cchHHHHHHH
Confidence            35678888999999999999999999999987654677888889999999999999999999999886  5677889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc---hhhHHHH
Q 022131          192 IGMFMALNRMDMVREIWNDVKGSGLGPDL-------DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ---KVTFETL  261 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~~~l  261 (302)
                      ...+...|++++|...+++..+.. +.+.       ..|..+...+...|++++|+..|++..+.  .|+   ...+..+
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            999999999999999999998852 2344       45778888889999999999999999774  565   4667777


Q ss_pred             HHHHhhcchH
Q 022131          262 YRGLIQSDML  271 (302)
Q Consensus       262 ~~~~~~~g~~  271 (302)
                      ..++...|+.
T Consensus       160 ~~~~~~~~~~  169 (228)
T 4i17_A          160 GVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777665

>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=99.45  E-value=4.4e-11  Score=107.94  Aligned_cols=229  Identities=10%  Similarity=0.052  Sum_probs=149.2

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +...+...|.+++|..+|++...     .....+.++.   .          .+++++|.++.++..      +..+|..
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~----------i~nldrAiE~Aervn------~p~vWsq 1110 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---H----------IGNLDRAYEFAERCN------EPAVWSQ 1110 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---H----------HhhHHHHHHHHHhcC------CHHHHHH
Confidence            34566778888888888887631     2222333333   3          667777777777542      4677778


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      +..++.+.|++++|.+.|.+.      -|...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|++.++
T Consensus      1111 LAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~r 1182 (1630)
T 1xi4_A         1111 LAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNR 1182 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcC
Confidence            888888888888888877553      266677778888888888888888887766653  233333346777777776


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      +++...+.    .    .++...+..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+.++
T Consensus      1183 leele~fI----~----~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaar 1245 (1630)
T 1xi4_A         1183 LAELEEFI----N----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGAR 1245 (1630)
T ss_pred             HHHHHHHH----h----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHH
Confidence            66533332    1    345555666677777777777777777664         366666666666666666666665


Q ss_pred             HHHHC------------------------CCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          245 EMIEK------------------------GLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       245 ~~~~~------------------------~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      +..+.                        ++..++..+..++..|.+.|.+++|+.+++.-.
T Consensus      1246 KA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1246 KANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            54211                        122345566677888888888888888886654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.44  E-value=1.9e-12  Score=102.81  Aligned_cols=238  Identities=12%  Similarity=0.034  Sum_probs=178.1

Q ss_pred             HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCCchhHHHHHHHHHhc---
Q 022131           36 TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPD----VTSFSIVLHVYSRAHQPQLSLDKLNFMKEK---  108 (302)
Q Consensus        36 ~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---  108 (302)
                      .+......+..          .|++++|...|+++.+.... +    ...+..+...+...|++++|...+++..+.   
T Consensus         7 ~l~~~g~~~~~----------~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~   75 (338)
T 3ro2_A            7 ELALEGERLCK----------SGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLART   75 (338)
T ss_dssp             HHHHHHHHHHH----------TTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH----------hccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc
Confidence            34444555666          78899999999999887422 3    367888999999999999999999887543   


Q ss_pred             -CCC-cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCC----hhhHHHHHHHHHccCC-----------------
Q 022131          109 -GIC-PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV-CPS----AETYNCFFKEYRGRKD-----------------  164 (302)
Q Consensus       109 -~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~-----------------  164 (302)
                       +.. ....++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                 
T Consensus        76 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a  155 (338)
T 3ro2_A           76 IGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDV  155 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHH
T ss_pred             ccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhH
Confidence             212 2355788889999999999999999998765311 112    3477888889999999                 


Q ss_pred             ---chHHHHHHHHHHhC----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHH
Q 022131          165 ---ANGAMKLYRQMKED----GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL-GPD----LDSYTMLIHGLCE  232 (302)
Q Consensus       165 ---~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~  232 (302)
                         +++|...+.+....    +..+.....+..+...+...|++++|...+++..+... .++    ..++..+...+..
T Consensus       156 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~  235 (338)
T 3ro2_A          156 RNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIF  235 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHH
Confidence               89999888876543    11012245678888899999999999999998765310 111    3478888899999


Q ss_pred             cCCHHHHHHHHHHHHHC----CCCC-chhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          233 KQKWKEACQYFVEMIEK----GLLP-QKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       233 ~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .|++++|...+++..+.    +..+ ...++..+...+...|++++|...+++..+.
T Consensus       236 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          236 LGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            99999999999988653    1111 1456778889999999999999999886543

>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=99.44  E-value=1e-11  Score=108.28  Aligned_cols=166  Identities=12%  Similarity=0.015  Sum_probs=148.5

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      +...|+.+-..+.+          .|++++|++.|++..+.. +-+..++..+..++.+.|++++|+..|++..+... -
T Consensus         8 ~a~al~nLG~~~~~----------~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~   75 (723)
T 4gyw_A            8 HADSLNNLANIKRE----------QGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-T   75 (723)
T ss_dssp             HHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-T
T ss_pred             cHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-C
Confidence            46788999999999          889999999999999874 33678999999999999999999999999998863 3


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +...|..+..++.+.|++++|++.|++..+... -+..+|..+..+|...|++++|+..|++..+..  +-+...+..+.
T Consensus        76 ~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a~~~L~  152 (723)
T 4gyw_A           76 FADAYSNMGNTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDAYCNLA  152 (723)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHhhhh
Confidence            688999999999999999999999999998743 467899999999999999999999999999886  66788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 022131          193 GMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .++...|++++|.+.++++.+
T Consensus       153 ~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          153 HCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHTTCCTTHHHHHHHHHH
T ss_pred             hHHHhcccHHHHHHHHHHHHH
Confidence            999999999999998887654

>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=99.43  E-value=3.1e-12  Score=99.16  Aligned_cols=161  Identities=13%  Similarity=0.051  Sum_probs=125.6

Q ss_pred             HHhcCCchhHHHHHHHHHhc-------CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC------CC-CCChhhHHH
Q 022131           89 YSRAHQPQLSLDKLNFMKEK-------GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN------GV-CPSAETYNC  154 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~  154 (302)
                      ....|++++|...+++..+.       ..+....++..+...|...|++++|...+++..+.      +. +....++..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            34567888888888777552       22334667889999999999999999999998764      11 234567888


Q ss_pred             HHHHHHccCCchHHHHHHHHHHhC------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHH
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKED------GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS------GLGP-DLD  221 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~  221 (302)
                      +...|...|++++|...+.+....      ...+....++..+...+...|++++|...+++..+.      +..| ...
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999998765      110334677888999999999999999999988764      1122 356


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ++..+..++...|++++|...+++..+.
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7888999999999999999999998763

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.40  E-value=3.9e-11  Score=97.43  Aligned_cols=228  Identities=7%  Similarity=-0.062  Sum_probs=158.0

Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCC-cc----cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----CC-C
Q 022131            7 YGWCKINRIDMAERFLGEMIERGV-EP----NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----GI-E   76 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~-~~----~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~-~   76 (302)
                      ..+...|++++|+..|++..+... .+    ...++..+...+..          .++++.|...+++..+.    +. .
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~----------~~~~~~A~~~~~~al~~~~~~~~~~  178 (378)
T 3q15_A          109 MYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYH----------MKQTHVSMYHILQALDIYQNHPLYS  178 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHTSTTCH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHH----------cCCcHHHHHHHHHHHHHHHhCCCch
Confidence            345788999999999999876511 12    24567777778888          66777777777776542    11 1


Q ss_pred             -CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCC-cCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-----CCC
Q 022131           77 -PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GIC-PTVATYSSVVKCLCSCGRIEDAEELLGEMVR-----NGV  145 (302)
Q Consensus        77 -~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~  145 (302)
                       ....+++.+...|...|++++|...+++..+.    +.+ ....++..+..+|...|++++|...+++..+     ...
T Consensus       179 ~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~  258 (378)
T 3q15_A          179 IRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD  258 (378)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG
T ss_pred             hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh
Confidence             12457888899999999999999999887653    211 1234677888889999999999999988876     322


Q ss_pred             CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC---CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCC-
Q 022131          146 CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC---VPNMHSYNILIGMFMALNR---MDMVREIWNDVKGSGLGP-  218 (302)
Q Consensus       146 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~-  218 (302)
                       ....++..+...+...|++++|...+++..+....   +.....+..+...+...++   ..+|...+++.   +..| 
T Consensus       259 -~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~  334 (378)
T 3q15_A          259 -LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAY  334 (378)
T ss_dssp             -GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHH
T ss_pred             -hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhH
Confidence             33667778888888889999998888888765321   1223345555556666677   66666666552   2222 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          219 DLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       219 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ....+..+...|...|++++|...|++..+
T Consensus       335 ~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          335 IEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            234556677788888888888888887754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.40  E-value=4.2e-11  Score=97.24  Aligned_cols=222  Identities=10%  Similarity=-0.037  Sum_probs=168.6

Q ss_pred             HHHHHHHHHHHHHHHhcCC-CC----CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC----C-C-cCHHHHHHHHHHHh
Q 022131           57 EKTIRNAEKVFDEMRVRGI-EP----DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG----I-C-PTVATYSSVVKCLC  125 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~-~-~~~~~~~~ll~~~~  125 (302)
                      .|++++|+..|++..+... .+    ...++..+...|...|+++.|...+++..+..    . . ....+++.+...|.
T Consensus       114 ~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~  193 (378)
T 3q15_A          114 QKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYD  193 (378)
T ss_dssp             TTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHH
T ss_pred             HCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHH
Confidence            6788999999999876421 12    24578889999999999999999999886541    1 1 12457888999999


Q ss_pred             ccCCHHHHHHHHHHHHHC----CCC-CChhhHHHHHHHHHccCCchHHHHHHHHHHh-----CCCCCCCHHHHHHHHHHH
Q 022131          126 SCGRIEDAEELLGEMVRN----GVC-PSAETYNCFFKEYRGRKDANGAMKLYRQMKE-----DGLCVPNMHSYNILIGMF  195 (302)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~~l~~~~  195 (302)
                      ..|++++|...+++..+.    +.. ....++..+...|...|++++|...+.+..+     ..  +....++..+...+
T Consensus       194 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~--~~~~~~~~~la~~~  271 (378)
T 3q15_A          194 DFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP--DLLPKVLFGLSWTL  271 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG--GGHHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC--hhHHHHHHHHHHHH
Confidence            999999999999987763    111 1235678888999999999999999999887     43  34477888999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCc-hhhHHHHHHHHhh
Q 022131          196 MALNRMDMVREIWNDVKGSG----LGPDLDSYTMLIHGLCEKQK---WKEACQYFVEMIEKGLLPQ-KVTFETLYRGLIQ  267 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  267 (302)
                      .+.|++++|...+++..+..    .+.....+..+...+...++   +.+|+..+++   .+..|+ ...+..+...|..
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~  348 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFES  348 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHH
Confidence            99999999999999987632    22223455666666677788   7777777765   333333 3456678889999


Q ss_pred             cchHHHHHHHHHhccc
Q 022131          268 SDMLRTWRRLKKKLDE  283 (302)
Q Consensus       268 ~g~~~~a~~~~~~~~~  283 (302)
                      .|++++|...+++..+
T Consensus       349 ~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          349 SCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999988654

>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=99.39  E-value=3.3e-10  Score=102.48  Aligned_cols=227  Identities=13%  Similarity=0.139  Sum_probs=139.0

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      ..|++++|.++.++..      +..+|..+..++..          .|++++|+..|.+.      -|...|..++.++.
T Consensus      1088 ~i~nldrAiE~Aervn------~p~vWsqLAKAql~----------~G~~kEAIdsYiKA------dD~say~eVa~~~~ 1145 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQ----------KGMVKEAIDSYIKA------DDPSSYMEVVQAAN 1145 (1630)
T ss_pred             HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHh----------CCCHHHHHHHHHhc------CChHHHHHHHHHHH
Confidence            6677777777776542      35667777777777          66777777777553      26667777777777


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMK  170 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  170 (302)
                      +.|++++|.+.+....+..  ++....+.++.+|++.+++++.....    +   .++...|..+...|...|++++|..
T Consensus      1146 ~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~ 1216 (1630)
T 1xi4_A         1146 TSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKL 1216 (1630)
T ss_pred             HcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            7777777777777666553  22223334666667666666433332    1   2344555556666666666666666


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------------------------CCCCCHHHHHHH
Q 022131          171 LYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS------------------------GLGPDLDSYTML  226 (302)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------~~~~~~~~~~~l  226 (302)
                      +|...          ..|..+..++.+.|++++|.+.+++..+.                        ++..+...+..+
T Consensus      1217 ~Y~kA----------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeel 1286 (1630)
T 1xi4_A         1217 LYNNV----------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEEL 1286 (1630)
T ss_pred             HHHhh----------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHH
Confidence            66653          24556666666666666666665544221                        122355667788


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHh--hcchHHHHHHHHH
Q 022131          227 IHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLI--QSDMLRTWRRLKK  279 (302)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~--~~g~~~~a~~~~~  279 (302)
                      +..|.+.|.+++|+.+++...... +-....|+-+...++  +.++..++.++|.
T Consensus      1287 i~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1287 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            888999999999999998776432 223344544444444  3445555544443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.36  E-value=4.1e-11  Score=92.10  Aligned_cols=192  Identities=6%  Similarity=-0.015  Sum_probs=143.7

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC--CChhh
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT---VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC--PSAET  151 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~  151 (302)
                      .+...+-.+...+.+.|++++|...|+++.+.... +   ...+..+..+|.+.|++++|...|++..+....  .....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            45677778888899999999999999999887422 3   678888999999999999999999999986321  22456


Q ss_pred             HHHHHHHHHc--------cCCchHHHHHHHHHHhCCCCCCCHHHH-----------------HHHHHHHHhcCCHHHHHH
Q 022131          152 YNCFFKEYRG--------RKDANGAMKLYRQMKEDGLCVPNMHSY-----------------NILIGMFMALNRMDMVRE  206 (302)
Q Consensus       152 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~  206 (302)
                      +..+..++..        .|++++|...|+++.+..  +.+....                 ..+...|.+.|++++|..
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            7777788888        999999999999998874  3333333                 456788889999999999


Q ss_pred             HHHHHHhCCCCC--CHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHHCCCCCchh----hHHHHHHHHhhcch
Q 022131          207 IWNDVKGSGLGP--DLDSYTMLIHGLCEK----------QKWKEACQYFVEMIEKGLLPQKV----TFETLYRGLIQSDM  270 (302)
Q Consensus       207 ~~~~~~~~~~~~--~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~g~  270 (302)
                      .|+++.+.....  ....+..+..+|...          |++++|...++++.+.  .|+..    ....+-..+.+.++
T Consensus       170 ~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          170 TYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             HHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHHHH
Confidence            999988752111  245677778888766          8899999999999874  45543    33334444444454


Q ss_pred             HHH
Q 022131          271 LRT  273 (302)
Q Consensus       271 ~~~  273 (302)
                      +++
T Consensus       248 ~~~  250 (261)
T 3qky_A          248 LEG  250 (261)
T ss_dssp             HHT
T ss_pred             hhh
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=99.33  E-value=2e-10  Score=78.32  Aligned_cols=127  Identities=15%  Similarity=0.197  Sum_probs=57.2

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh
Q 022131          118 SSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA  197 (302)
Q Consensus       118 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (302)
                      ..+...+...|++++|..+++++.+... .+...+..+...+...|++++|...++++....  +.+...+..+...+..
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHH
Confidence            3334444444444444444444443321 233344444444444444444444444444433  2334444444444555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          198 LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            555555555555444431 22344444445555555555555555554443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.33  E-value=7.5e-10  Score=85.58  Aligned_cols=164  Identities=7%  Similarity=0.016  Sum_probs=80.7

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC-CcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC-----Chhh
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI-CPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP-----SAET  151 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~  151 (302)
                      +..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.+.  .|     +..+
T Consensus        99 ~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~  176 (310)
T 3mv2_B           99 SPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEM  176 (310)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHH
Confidence            344444555555566666666666665544432 124445555556666666666666666665543  23     2333


Q ss_pred             HHHHHHHH--HccC--CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C----CCC
Q 022131          152 YNCFFKEY--RGRK--DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS-----G----LGP  218 (302)
Q Consensus       152 ~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~----~~~  218 (302)
                      ...+..++  ...|  +..+|..+|+++.+.   .|+..+-..++.++.+.|++++|.+.++.+.+.     +    -+-
T Consensus       177 l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~  253 (310)
T 3mv2_B          177 ILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLY  253 (310)
T ss_dssp             HHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSS
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCC
Confidence            44444332  2222  556666666665444   343222233333555566666666666544431     0    022


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          219 DLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       219 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ++.+...+|......|+  +|.+++.++.+
T Consensus       254 ~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          254 KPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            44444344444444454  55556655555

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.32  E-value=1.5e-10  Score=96.13  Aligned_cols=157  Identities=10%  Similarity=0.034  Sum_probs=89.2

Q ss_pred             HHHHHHHHHhccC---CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc----CCchHHHHHHHHHHhCCCCCCCHHHH
Q 022131          116 TYSSVVKCLCSCG---RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR----KDANGAMKLYRQMKEDGLCVPNMHSY  188 (302)
Q Consensus       116 ~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  188 (302)
                      .+..+...|...|   +.++|+..|++..+.|. ++...+..+...|...    +++++|...|++.. .+    +...+
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g----~~~a~  251 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG----YPASW  251 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG----STHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC----CHHHH
Confidence            5555556666666   66666666666666653 3444444555555443    56666666666665 32    23344


Q ss_pred             HHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHCCCCCchhhHHH
Q 022131          189 NILIGM-F--MALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ-----KWKEACQYFVEMIEKGLLPQKVTFET  260 (302)
Q Consensus       189 ~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~~~~~~~~p~~~~~~~  260 (302)
                      ..+... +  ...++.++|.+.|++..+.|   +...+..+...|. .|     ++++|...|++.. .   -+......
T Consensus       252 ~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~  323 (452)
T 3e4b_A          252 VSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYY  323 (452)
T ss_dssp             HHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHH
Confidence            444444 2  34566677777776666654   5555555655555 44     6777777766654 2   23444455


Q ss_pred             HHHHHhh----cchHHHHHHHHHhccccCC
Q 022131          261 LYRGLIQ----SDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       261 l~~~~~~----~g~~~~a~~~~~~~~~~~~  286 (302)
                      |...|..    ..+.++|..++++..+.|.
T Consensus       324 Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          324 LGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            5544444    2367777777777666554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.31  E-value=4.6e-10  Score=86.78  Aligned_cols=180  Identities=9%  Similarity=0.041  Sum_probs=138.6

Q ss_pred             HHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCChhhHHHHHHHHHccCCchHHHHHHHHHH
Q 022131           98 SLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV-CPSAETYNCFFKEYRGRKDANGAMKLYRQMK  176 (302)
Q Consensus        98 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  176 (302)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            778888877665 45666777888999999999999999999877653 2367788899999999999999999999998


Q ss_pred             hCCCCCC-----CHHHHHHHHHHHH--hcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 022131          177 EDGLCVP-----NMHSYNILIGMFM--ALN--RMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMI  247 (302)
Q Consensus       177 ~~~~~~~-----~~~~~~~l~~~~~--~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  247 (302)
                      +.   .|     +..+...++.++.  ..|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.
T Consensus       164 ~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            87   56     3666677776633  334  899999999999875  4553444445558999999999999999765


Q ss_pred             HCC---------CCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          248 EKG---------LLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       248 ~~~---------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +.-         -+-|+.++..++......|+  ++.++++++.+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            420         13356677667666666776  8888888887655

>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=99.31  E-value=3.4e-10  Score=77.09  Aligned_cols=131  Identities=12%  Similarity=0.119  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      ..+..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++.+.+. .+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHH
Confidence            356778888999999999999999998775 33677888899999999999999999999987643 4677888899999


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ...|++++|...++++.+..  +.+...+..+...+...|++++|...++++...
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999998875  567888899999999999999999999998764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.30  E-value=2.6e-10  Score=84.45  Aligned_cols=173  Identities=9%  Similarity=0.029  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHH----------------HHHHHhccCCHHHHHHHHHHHHHC
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSS----------------VVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      ..+-.....+...|++++|...|++..+... -+...+..                +..+|.+.|++++|+..|++..+.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIALNI-DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCH-HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3344455567788899999999998887642 24455666                888899999999999999999887


Q ss_pred             CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHH
Q 022131          144 GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR--MDMVREIWNDVKGSGLGPDLD  221 (302)
Q Consensus       144 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~  221 (302)
                      .+ .+...+..+..++...|++++|...|++..+..  +.+...+..+..++...|.  .+.+...+.....  ..|...
T Consensus        84 ~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (208)
T 3urz_A           84 AP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLE--ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQY  158 (208)
T ss_dssp             CT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHH
T ss_pred             CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhH
Confidence            43 467888999999999999999999999999886  6678888888888766554  3445555555532  222223


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFET  260 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  260 (302)
                      .+.....++...|++++|...|++.++  +.|+......
T Consensus       159 a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~  195 (208)
T 3urz_A          159 ARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKT  195 (208)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHH
Confidence            334455566778899999999999876  5677654443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.29  E-value=2.3e-09  Score=79.57  Aligned_cols=176  Identities=10%  Similarity=0.032  Sum_probs=140.8

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC----CHHHHHHHH
Q 022131           62 NAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG----RIEDAEELL  137 (302)
Q Consensus        62 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~  137 (302)
                      +|++.|++..+.|   +...+..+...|...+++++|...|++..+.|   +...+..+...|.. +    ++++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4677788877765   77888888889989999999999999998876   56777888888887 6    899999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHc----cCCchHHHHHHHHHHhCCCCCC--CHHHHHHHHHHHHh----cCCHHHHHHH
Q 022131          138 GEMVRNGVCPSAETYNCFFKEYRG----RKDANGAMKLYRQMKEDGLCVP--NMHSYNILIGMFMA----LNRMDMVREI  207 (302)
Q Consensus       138 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~----~~~~~~a~~~  207 (302)
                      ++..+.|   +...+..+...|..    .+++++|...|++..+.+  ++  +...+..|...|..    .++.++|...
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  151 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDS--ESDAAVDAQMLLGLIYASGVHGPEDDVKASEY  151 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSST--TSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcC--CCcchHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            9998764   56777788888877    789999999999998875  21  26778888888888    7889999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHc-C-----CHHHHHHHHHHHHHCCC
Q 022131          208 WNDVKGSGLGPDLDSYTMLIHGLCEK-Q-----KWKEACQYFVEMIEKGL  251 (302)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~~  251 (302)
                      |++..+.  ..+...+..|...|... |     ++++|...|++..+.|.
T Consensus       152 ~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          152 FKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            9998875  23555677777777653 3     89999999998887764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.27  E-value=9.8e-09  Score=85.27  Aligned_cols=223  Identities=13%  Similarity=0.051  Sum_probs=121.8

Q ss_pred             HHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc----CCchhHHHHHHHHHhcCCC
Q 022131           36 TYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRA----HQPQLSLDKLNFMKEKGIC  111 (302)
Q Consensus        36 ~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~  111 (302)
                      .+..+-..|...|.       ..+.++|++.|++..+.| .++...+..+...|...    +++++|...|++.. .|  
T Consensus       178 a~~~Lg~~~~~~g~-------~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g--  246 (452)
T 3e4b_A          178 CYVELATVYQKKQQ-------PEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG--  246 (452)
T ss_dssp             HHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG--
T ss_pred             HHHHHHHHHHHcCC-------cccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC--
Confidence            55555555555221       236677777777776665 33445445555555443    56667777776665 32  


Q ss_pred             cCHHHHHHHHHH-H--hccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC-----CchHHHHHHHHHHhCCCCCC
Q 022131          112 PTVATYSSVVKC-L--CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK-----DANGAMKLYRQMKEDGLCVP  183 (302)
Q Consensus       112 ~~~~~~~~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~  183 (302)
                       +...+..+... +  ...+++++|+.+|++..+.|   +...+..+...|. .|     ++++|...|++.. .|    
T Consensus       247 -~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g----  316 (452)
T 3e4b_A          247 -YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR----  316 (452)
T ss_dssp             -STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT----
T ss_pred             -CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC----
Confidence             34444555544 3  34667777777777766654   4555555555555 33     6667777766665 32    


Q ss_pred             CHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCch
Q 022131          184 NMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE----KQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       184 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                      +......|...|..    ..+.++|...|++..+.|.   ......|...|..    ..+.++|...|+...+.|. ++.
T Consensus       317 ~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~-~~a  392 (452)
T 3e4b_A          317 EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT-PEA  392 (452)
T ss_dssp             CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC-HHH
T ss_pred             CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC-HHH
Confidence            34455555555554    2366777777777666542   3344444444442    3467777777777666553 222


Q ss_pred             hhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          256 VTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       256 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ......+......++..++.++.++..+
T Consensus       393 ~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          393 NDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            2222223333344455566665554433

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.27  E-value=2.1e-09  Score=86.96  Aligned_cols=227  Identities=11%  Similarity=-0.012  Sum_probs=162.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCCchhHHHHHHHHHhcCC-CcC----HHHHHHHHHHHhcc
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDV----TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI-CPT----VATYSSVVKCLCSC  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~ll~~~~~~  127 (302)
                      .|++++|...+++........+.    ..++.+...+...|++++|...+++..+... ..+    ..++..+...+...
T Consensus        27 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  106 (373)
T 1hz4_A           27 DGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQ  106 (373)
T ss_dssp             TTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHC
Confidence            67889999999998876422222    2566777888899999999999998765311 112    23456778889999


Q ss_pred             CCHHHHHHHHHHHHHC----CCC--C-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC--C-CCHHHHHHHHHHHHh
Q 022131          128 GRIEDAEELLGEMVRN----GVC--P-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC--V-PNMHSYNILIGMFMA  197 (302)
Q Consensus       128 ~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~-~~~~~~~~l~~~~~~  197 (302)
                      |++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.......  . ....++..+...+..
T Consensus       107 G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~  186 (373)
T 1hz4_A          107 GFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLA  186 (373)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHH
Confidence            9999999999987753    221  2 2345666788899999999999999998765320  1 124567788889999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC-HHHHH-----HHHHHHHHcCCHHHHHHHHHHHHHCCCCC---chhhHHHHHHHHhhc
Q 022131          198 LNRMDMVREIWNDVKGSGLGPD-LDSYT-----MLIHGLCEKQKWKEACQYFVEMIEKGLLP---QKVTFETLYRGLIQS  268 (302)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~-----~li~~~~~~g~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~  268 (302)
                      .|++++|...+++.......++ ...+.     ..+..+...|++++|...+++..+....+   ....+..+...+...
T Consensus       187 ~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~  266 (373)
T 1hz4_A          187 RGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILL  266 (373)
T ss_dssp             HTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHc
Confidence            9999999999998765311111 11222     23344778999999999999876532111   122456777889999


Q ss_pred             chHHHHHHHHHhccc
Q 022131          269 DMLRTWRRLKKKLDE  283 (302)
Q Consensus       269 g~~~~a~~~~~~~~~  283 (302)
                      |++++|...+++..+
T Consensus       267 g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          267 GEFEPAEIVLEELNE  281 (373)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.25  E-value=5.6e-10  Score=87.24  Aligned_cols=208  Identities=10%  Similarity=-0.007  Sum_probs=149.0

Q ss_pred             CcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----CCC-CCHHHHHHHHHH
Q 022131           14 RIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----GIE-PDVTSFSIVLHV   88 (302)
Q Consensus        14 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~   88 (302)
                      ++++|.+.|+..               ...+..          .|++++|...|++....    |.+ ....+|+.+..+
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~----------~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~   86 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRL----------RKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKC   86 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHH----------TTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHH----------cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            488888888776               234556          45555666665555432    222 238999999999


Q ss_pred             HHhcCCchhHHHHHHHHHhcCC---Cc--CHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHCCCCC-C----hhhHHHHHH
Q 022131           89 YSRAHQPQLSLDKLNFMKEKGI---CP--TVATYSSVVKCLCSC-GRIEDAEELLGEMVRNGVCP-S----AETYNCFFK  157 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~  157 (302)
                      |.+.|++++|+..+++..+...   .+  ...++..+...|... |++++|+..|++..+..... +    ..++..+..
T Consensus        87 ~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~  166 (292)
T 1qqe_A           87 FKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCAD  166 (292)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Confidence            9999999999999998865421   11  145788899999996 99999999999987642111 1    356888899


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNM-----HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL------DSYTML  226 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l  226 (302)
                      .+...|++++|...|++..+.....+..     ..+..+..++...|++++|...+++..+.  .|+.      ..+..+
T Consensus       167 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l  244 (292)
T 1qqe_A          167 LKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSL  244 (292)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHH
Confidence            9999999999999999998874212221     25777888899999999999999998763  3332      234455


Q ss_pred             HHHHH--HcCCHHHHHHHHHHHHH
Q 022131          227 IHGLC--EKQKWKEACQYFVEMIE  248 (302)
Q Consensus       227 i~~~~--~~g~~~~a~~~~~~~~~  248 (302)
                      +.++.  ..+++++|+..|+++..
T Consensus       245 ~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          245 IDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHcCCHHHHHHHHHHhccCCc
Confidence            66664  45679999999877643

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.21  E-value=3.6e-09  Score=79.32  Aligned_cols=188  Identities=7%  Similarity=0.014  Sum_probs=118.5

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh--hhHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP--TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSA--ETYN  153 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  153 (302)
                      +...+..+...+.+.|++++|...|+++.+.....  ....+..+..+|.+.|++++|+..|+++.+.......  ..+.
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            44556667778888999999999999988764221  2356777888899999999999999998876432111  2344


Q ss_pred             HHHHHHHc------------------cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022131          154 CFFKEYRG------------------RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG  215 (302)
Q Consensus       154 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (302)
                      .+..++..                  .|++++|...|+++.+..  +-+...+.......          .+...+    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~----------~~~~~~----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLV----------FLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHH----------HHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHH----------HHHHHH----
Confidence            44444443                  344555555555555542  11211111110000          000000    


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch----hhHHHHHHHHhhcchHHHHHHHHHhccccCCC
Q 022131          216 LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK----VTFETLYRGLIQSDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       216 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  287 (302)
                          ......+...+.+.|++++|+..|+++.+.  .|+.    ..+..+..++.+.|+.++|.+.++.+...+..
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                001124566778899999999999998874  3432    46777888999999999999999888776544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.21  E-value=3.3e-08  Score=77.04  Aligned_cols=224  Identities=9%  Similarity=0.052  Sum_probs=154.7

Q ss_pred             HHhcCCc-chHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHH--HHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 022131            9 WCKINRI-DMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEK--TIRNAEKVFDEMRVRGIEPDVTSFSIV   85 (302)
Q Consensus         9 ~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l   85 (302)
                      ..+.|.. ++|+++++.++..+ +-+...|+.--..+..          .+  .++++++.++.+...+.+ +..+|+.-
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~----------l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R  109 (306)
T 3dra_A           42 LMKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKN----------LPNRNLYDELDWCEEIALDNEK-NYQIWNYR  109 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT----------CTTSCHHHHHHHHHHHHHHCTT-CCHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHH----------cccccHHHHHHHHHHHHHHCcc-cHHHHHHH
Confidence            3344544 57888888887763 2244566776666666          44  678888888888876433 55666655


Q ss_pred             HHHH----Hhc---CCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHH--HHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           86 LHVY----SRA---HQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIE--DAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        86 l~~~----~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      -..+    ...   +++++++.+++.+.+...+ +..+|+.-...+.+.|.++  ++++.++++.+..+ -+...|+.-.
T Consensus       110 ~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~  187 (306)
T 3dra_A          110 QLIIGQIMELNNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRF  187 (306)
T ss_dssp             HHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            5444    444   6778888888888877543 7777777777777777777  88888888887654 4677777666


Q ss_pred             HHHHccCC------chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHhCC--CCCCHHHHHHHH
Q 022131          157 KEYRGRKD------ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDM-VREIWNDVKGSG--LGPDLDSYTMLI  227 (302)
Q Consensus       157 ~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~li  227 (302)
                      ..+...+.      ++++++.+..+....  +-|...|+.+-..+.+.|+... +..+..++.+.+  -+.+...+..+.
T Consensus       188 ~ll~~l~~~~~~~~~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la  265 (306)
T 3dra_A          188 FLLFSKKHLATDNTIDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLA  265 (306)
T ss_dssp             HHHHSSGGGCCHHHHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHH
T ss_pred             HHHHhccccchhhhHHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHH
Confidence            66666665      677888888777775  6777888777777777776433 455666555432  134667777888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 022131          228 HGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .++.+.|+.++|.++++.+.+
T Consensus       266 ~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          266 KIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHccCCHHHHHHHHHHHHh
Confidence            888888888888888888765

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.21  E-value=3.1e-09  Score=78.89  Aligned_cols=178  Identities=12%  Similarity=0.052  Sum_probs=145.9

Q ss_pred             chHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--
Q 022131           16 DMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH--   93 (302)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--   93 (302)
                      .+|.+.|++..+.|   ++..+..+-..+..          .+++++|+..|++..+.|   +...+..|...|.. +  
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~----------~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~   65 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVS----------SGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQ   65 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STT
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhc----------CCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCC
Confidence            36788888888775   67778888888888          889999999999999876   67788888888887 7  


Q ss_pred             --CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHc----c
Q 022131           94 --QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRIEDAEELLGEMVRNGVC-PSAETYNCFFKEYRG----R  162 (302)
Q Consensus        94 --~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~  162 (302)
                        ++++|...|++..+.|   +...+..+...|..    .+++++|+.+|++..+.|.. .++..+..|...|..    .
T Consensus        66 ~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~  142 (212)
T 3rjv_A           66 QADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGP  142 (212)
T ss_dssp             SCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSS
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCC
Confidence              8999999999998875   67788888888887    88999999999999987531 127788888888888    8


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHhCCC
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL-N-----RMDMVREIWNDVKGSGL  216 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~~  216 (302)
                      +++++|...|++..+.+   .+...+..|...|... |     +.++|...|+...+.|.
T Consensus       143 ~d~~~A~~~~~~A~~~~---~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          143 EDDVKASEYFKGSSSLS---RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             CCHHHHHHHHHHHHHTS---CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHcC---CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            89999999999998872   3444677777777653 3     89999999999888753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.21  E-value=1e-09  Score=85.51  Aligned_cols=163  Identities=10%  Similarity=-0.026  Sum_probs=78.6

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH-
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL-  191 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-  191 (302)
                      +...+..+...+.+.|++++|...|++..+... .+...+..+...+...|++++|...++++....   |+....... 
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~---p~~~~~~~~~  191 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD---QDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG---CSHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh---cchHHHHHHH
Confidence            334444455555555555555555555554422 234455555555555555555555555554442   232222111 


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CchhhHHHHHHHHhhcch
Q 022131          192 IGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLL-PQKVTFETLYRGLIQSDM  270 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~  270 (302)
                      ...+...++.+.|...+++.... -+.+...+..+...+...|++++|...+.++.+..-. .+...+..+...+...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~-~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAE-NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhc-CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            12233444455555555555443 1234455555555555555555555555555543110 113345555555555555


Q ss_pred             HHHHHHHHHh
Q 022131          271 LRTWRRLKKK  280 (302)
Q Consensus       271 ~~~a~~~~~~  280 (302)
                      .++|...+++
T Consensus       271 ~~~a~~~~r~  280 (287)
T 3qou_A          271 GDALASXYRR  280 (287)
T ss_dssp             TCHHHHHHHH
T ss_pred             CCcHHHHHHH
Confidence            5555554443

>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=99.20  E-value=5.2e-10  Score=97.65  Aligned_cols=185  Identities=14%  Similarity=0.021  Sum_probs=147.3

Q ss_pred             HhcCCchhHHHHHHHHH--------hcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 022131           90 SRAHQPQLSLDKLNFMK--------EKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG  161 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (302)
                      ...|++++|++.+++..        +.. +.+...+..+...+.+.|++++|+..|++..+... .+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            67889999999999988        432 34667888888999999999999999999887643 467888888899999


Q ss_pred             cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      .|++++|...|++..+..  +.+...+..+..++.+.|++++ .+.|++..+.. +.+...|..+..++...|++++|++
T Consensus       480 ~g~~~~A~~~~~~al~l~--P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF--PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999998886  5677888899999999999999 99999988752 3467888899999999999999999


Q ss_pred             HHHHHHHCCCCCc-hhhHHHHHHHHhhc--------chHHHHHHHHHhcc
Q 022131          242 YFVEMIEKGLLPQ-KVTFETLYRGLIQS--------DMLRTWRRLKKKLD  282 (302)
Q Consensus       242 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~--------g~~~~a~~~~~~~~  282 (302)
                      .|++..+  +.|+ ...+..+..++...        +++++|.+.+..+.
T Consensus       556 ~~~~al~--l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~  603 (681)
T 2pzi_A          556 TLDEVPP--TSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALP  603 (681)
T ss_dssp             HHHTSCT--TSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSC
T ss_pred             HHHhhcc--cCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCC
Confidence            9998865  3554 45666667776553        34666666665553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.20  E-value=6.6e-09  Score=77.86  Aligned_cols=170  Identities=11%  Similarity=-0.005  Sum_probs=118.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCC-C-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCH--HHHHHHHHHHhc------
Q 022131           57 EKTIRNAEKVFDEMRVRGIE-P-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTV--ATYSSVVKCLCS------  126 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~------  126 (302)
                      .|++++|+..|+++...... | ....+..+..++.+.|++++|...|+++.+.......  ..+..+..++..      
T Consensus        17 ~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~   96 (225)
T 2yhc_A           17 DGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSAL   96 (225)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC---
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhh
Confidence            67889999999999986422 1 1357888899999999999999999999887533111  244455555543      


Q ss_pred             ------------cCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          127 ------------CGRIEDAEELLGEMVRNGVCPSA-ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       127 ------------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                                  .|++++|...|+++.+..  |+. ..+......          ..+...+.         .....+..
T Consensus        97 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----------~~~~~~~~---------~~~~~~a~  155 (225)
T 2yhc_A           97 QGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----------VFLKDRLA---------KYEYSVAE  155 (225)
T ss_dssp             -----------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----------HHHHHHHH---------HHHHHHHH
T ss_pred             hhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----------HHHHHHHH---------HHHHHHHH
Confidence                        578999999999999863  332 233221110          01111111         11234567


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          194 MFMALNRMDMVREIWNDVKGSGLGPD----LDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      .+.+.|++++|...|+++.+.  .|+    ...+..+..++.+.|++++|.+.++.+...
T Consensus       156 ~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          156 YYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            788899999999999998875  233    256778888999999999999999988775

>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=99.20  E-value=2.8e-10  Score=99.40  Aligned_cols=171  Identities=9%  Similarity=-0.096  Sum_probs=143.8

Q ss_pred             HHHHHHHHHHHHHHH--------hcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC
Q 022131           57 EKTIRNAEKVFDEMR--------VRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG  128 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  128 (302)
                      .+++++|++.+++..        +.. +.+...+..+...+.+.|++++|...++++.+... .+...|..+..++...|
T Consensus       404 ~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          404 LSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHcC
Confidence            567899999999988        432 44677889999999999999999999999988753 37889999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022131          129 RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIW  208 (302)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (302)
                      ++++|+..|++..+... .+...+..+..++...|++++ .+.|++..+..  +.+...+..+..++.+.|++++|.+.|
T Consensus       482 ~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          482 DYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             CHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999998743 467888999999999999999 99999999886  678889999999999999999999999


Q ss_pred             HHHHhCCCCCC-HHHHHHHHHHHHHcCC
Q 022131          209 NDVKGSGLGPD-LDSYTMLIHGLCEKQK  235 (302)
Q Consensus       209 ~~~~~~~~~~~-~~~~~~li~~~~~~g~  235 (302)
                      ++..+.  .|+ ...+..+..++...++
T Consensus       558 ~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             Hhhccc--CcccHHHHHHHHHHHHccCC
Confidence            998875  454 5677777777766554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.20  E-value=3.3e-09  Score=81.36  Aligned_cols=170  Identities=10%  Similarity=-0.014  Sum_probs=134.9

Q ss_pred             cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCC-CCHHH
Q 022131          112 PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS---AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCV-PNMHS  187 (302)
Q Consensus       112 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~  187 (302)
                      .+...+..+...+.+.|++++|...|+++.+... .+   ...+..+..++...|++++|...|+++.+..... .....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            4567778888899999999999999999998643 23   6778889999999999999999999999873101 22556


Q ss_pred             HHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCCHHHH-----------------HHHHHHHHHcCCHHHHHHH
Q 022131          188 YNILIGMFMA--------LNRMDMVREIWNDVKGSGLGPDLDSY-----------------TMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       188 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~li~~~~~~g~~~~a~~~  242 (302)
                      +..+..++..        .|++++|...|+++.+.. +.+....                 ..+...|...|++++|+..
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            7778888888        999999999999998752 2222333                 4567888999999999999


Q ss_pred             HHHHHHCCCCCc----hhhHHHHHHHHhhc----------chHHHHHHHHHhccccC
Q 022131          243 FVEMIEKGLLPQ----KVTFETLYRGLIQS----------DMLRTWRRLKKKLDEES  285 (302)
Q Consensus       243 ~~~~~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~  285 (302)
                      |+++.+.  .|+    ...+..+..++...          |++++|...++++.+..
T Consensus       171 ~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          171 YEAVFDA--YPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHH--CTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHH--CCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            9999874  343    34667777788766          89999999999987654

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.19  E-value=3.5e-10  Score=81.37  Aligned_cols=161  Identities=12%  Similarity=0.066  Sum_probs=105.6

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HH
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE-YR  160 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~  160 (302)
                      +..+...+.+.|++++|...+++..+.. +.+...+..+...+.+.|++++|+..+++.....  |+...+...... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            4455666777888888888888776653 2356677778888888888888888888776543  233333222211 12


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP-DLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a  239 (302)
                      ..+...++...+++..+..  +.+...+..+...+...|++++|...|+++.+....+ +...+..+..++...|+.++|
T Consensus        86 ~~~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hhcccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            2223344677777777664  4567777777777778888888888887777653222 245677777777777777777


Q ss_pred             HHHHHHHH
Q 022131          240 CQYFVEMI  247 (302)
Q Consensus       240 ~~~~~~~~  247 (302)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.18  E-value=5.8e-09  Score=82.08  Aligned_cols=216  Identities=13%  Similarity=0.077  Sum_probs=154.3

Q ss_pred             HHHHHHHHHHHHHHHhc------CCCCCH----HHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCC-cCHHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVR------GIEPDV----TSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GIC-PTVATYSSVV  121 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~------~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll  121 (302)
                      .+++++|.+++++..+.      +..++.    ..|......|...|++++|...+.+..+.    +-. .-..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            67788888888877652      112342    36777888899999999999999887654    211 1245788899


Q ss_pred             HHHhccCCHHHHHHHHHHHHHC----CCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC--CC--CHHHHHHHH
Q 022131          122 KCLCSCGRIEDAEELLGEMVRN----GVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC--VP--NMHSYNILI  192 (302)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~l~  192 (302)
                      ..|.+.|++++|+..|++..+.    |-.. ...++..+...|.. |++++|+..+++..+....  .+  ...++..+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            9999999999999999987653    2111 14577788888888 9999999999988764210  11  146788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch------hhHHHH
Q 022131          193 GMFMALNRMDMVREIWNDVKGS----GLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK------VTFETL  261 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~------~~~~~l  261 (302)
                      ..+.+.|++++|...|++....    +..++ ...+..+..++...|++++|...|++.. .  .|+.      .....+
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l  239 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDL  239 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHH
Confidence            9999999999999999998763    11111 2356667777888899999999999987 3  3322      234445


Q ss_pred             HHHHhhcchHHHHHHH
Q 022131          262 YRGLIQSDMLRTWRRL  277 (302)
Q Consensus       262 ~~~~~~~g~~~~a~~~  277 (302)
                      +.++ ..|+.+.+.++
T Consensus       240 ~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          240 LQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHH-HTTCHHHHHHH
T ss_pred             HHHH-HhcCHHHHHHH
Confidence            5555 56776666663

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.17  E-value=3.3e-09  Score=78.49  Aligned_cols=167  Identities=10%  Similarity=0.049  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHH----------------HHHHHHccCCchHHHHHHHHHHh
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNC----------------FFKEYRGRKDANGAMKLYRQMKE  177 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~  177 (302)
                      ...+......+...|++++|+..|++..+..+ .+...|..                +..++...|++++|...+++..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNI-DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCH-HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34445556677889999999999999988632 24556666                88899999999999999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHCCCCCch
Q 022131          178 DGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK--WKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~p~~  255 (302)
                      ..  +.+...+..+..++...|++++|...|++..+.. +.+...+..+..+|...|+  ...+...+.....  ..|..
T Consensus        83 ~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  157 (208)
T 3urz_A           83 KA--PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQ  157 (208)
T ss_dssp             HC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHH
T ss_pred             HC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchh
Confidence            86  6788999999999999999999999999999863 3467888888888866554  4455556655532  22333


Q ss_pred             hhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          256 VTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       256 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      ..+.....++...|++++|...+++..+...
T Consensus       158 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          158 YARYRDGLSKLFTTRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHHHHHHHHHHTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            3444455667788999999999999876544

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.16  E-value=2.1e-09  Score=92.11  Aligned_cols=154  Identities=8%  Similarity=-0.059  Sum_probs=118.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .+++++|++.|++..+.. +.+...+..+...+.+.|++++|.+.+++..+.. +.+...+..+..+|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            578899999999988764 3367889999999999999999999999998875 33688899999999999999999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHh
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL---NRMDMVREIWNDVKG  213 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~  213 (302)
                      +++..+... .+...+..+..++...|++++|.+.+++..+..  +.+...+..+..++...   |+.++|.+.+++..+
T Consensus        80 ~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            999988743 467888999999999999999999999998885  56788889999999999   999999999999888


Q ss_pred             CC
Q 022131          214 SG  215 (302)
Q Consensus       214 ~~  215 (302)
                      .+
T Consensus       157 ~~  158 (568)
T 2vsy_A          157 QG  158 (568)
T ss_dssp             HT
T ss_pred             cC
Confidence            63

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.15  E-value=1.3e-09  Score=76.15  Aligned_cols=139  Identities=6%  Similarity=-0.101  Sum_probs=101.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .+++++|++.++...... +-+...+-.+...|.+.|++++|++.|++..+... -+..+|..+..+|.+.|++++|+..
T Consensus        10 ~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A           10 KADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             HHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHHHHHH
Confidence            788888888888876542 11334556678888888888888888888887753 3677888888888888888888888


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHH-HHHHHhCCCCCCCHHHHHHHHHHHHhcCC
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKL-YRQMKEDGLCVPNMHSYNILIGMFMALNR  200 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (302)
                      |++..+... -+..++..+...|...|+.+++... +++..+..  |.+..+|......+...|+
T Consensus        88 ~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~--P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           88 YRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF--PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhCc
Confidence            888887643 3567788888888888887765554 46666654  5566677766666665553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.15  E-value=2.5e-09  Score=83.34  Aligned_cols=168  Identities=10%  Similarity=-0.038  Sum_probs=139.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHH-
Q 022131           76 EPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNC-  154 (302)
Q Consensus        76 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  154 (302)
                      +.+...+..+...+.+.|++++|...|++..+... -+...+..+...+.+.|++++|...++++....  |+...... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            44667788888999999999999999999988753 377889999999999999999999999987753  44443332 


Q ss_pred             HHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHc
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG-PDLDSYTMLIHGLCEK  233 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~  233 (302)
                      ....+...++.+++...+++.....  +.+...+..+...+...|++++|...+.++.+.... .+...+..+...+...
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence            2334667788888999999998886  778899999999999999999999999999886321 1267899999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 022131          234 QKWKEACQYFVEMIE  248 (302)
Q Consensus       234 g~~~~a~~~~~~~~~  248 (302)
                      |+.++|...+++...
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            999999999987653

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.15  E-value=2.7e-10  Score=79.68  Aligned_cols=112  Identities=7%  Similarity=-0.041  Sum_probs=52.8

Q ss_pred             HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHH
Q 022131           89 YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGA  168 (302)
Q Consensus        89 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  168 (302)
                      +...|++++|+..++...... +.+...+..+...|.+.|++++|+..|++..+... -+..+|..+..+|...|++++|
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHHH
Confidence            334444555555554443321 11222334445555555555555555555554422 2444555555555555555555


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022131          169 MKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      ...|++..+..  +.+...+..+...+.+.|+.++|
T Consensus        85 ~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~a  118 (150)
T 4ga2_A           85 VECYRRSVELN--PTQKDLVLKIAELLCKNDVTDGR  118 (150)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHHHHHHHHHCSSSSH
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHH
Confidence            55555555443  33444555555555555554443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.14  E-value=2.6e-09  Score=91.44  Aligned_cols=153  Identities=7%  Similarity=-0.072  Sum_probs=115.8

Q ss_pred             cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHH
Q 022131           92 AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKL  171 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  171 (302)
                      .|++++|.+.+++..+.. +.+...+..+...+.+.|++++|...+++..+... .+...+..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478889999999887764 33678888999999999999999999999988743 4678888899999999999999999


Q ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc---CCHHHHHHHHHHHHH
Q 022131          172 YRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK---QKWKEACQYFVEMIE  248 (302)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~  248 (302)
                      +++..+..  +.+...+..+..++...|++++|.+.+++..+.. +.+...+..+..++...   |++++|.+.+++..+
T Consensus        80 ~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDAA--PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            99998875  5678889999999999999999999999988762 34678888899999999   999999999999877


Q ss_pred             C
Q 022131          249 K  249 (302)
Q Consensus       249 ~  249 (302)
                      .
T Consensus       157 ~  157 (568)
T 2vsy_A          157 Q  157 (568)
T ss_dssp             H
T ss_pred             c
Confidence            5

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.11  E-value=4.6e-08  Score=76.23  Aligned_cols=218  Identities=8%  Similarity=-0.020  Sum_probs=174.7

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CchhHHHHHHHHHhcCCCcCHHHHHHHHHHH----hcc---CCHH
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH--QPQLSLDKLNFMKEKGICPTVATYSSVVKCL----CSC---GRIE  131 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~---~~~~  131 (302)
                      ++|+++++.+...+ +-+...|+.--..+...+  +++++++.++.+.....+ +..+|+.--..+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHH
Confidence            67999999999875 336778888888888888  999999999999988644 556666555555    444   7899


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC------HHH
Q 022131          132 DAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN--GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR------MDM  203 (302)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~  203 (302)
                      +++.+++++.+... -+..+|+.-...+...|.++  ++++.+.++.+..  +.|...|+.......+.+.      +++
T Consensus       128 ~EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          128 REFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            99999999998754 58888988888888889888  9999999999987  6888999888777777776      889


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHCC--CCCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          204 VREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE-ACQYFVEMIEKG--LLPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                      +.+.++++.... +-|...|+..-..+.+.|+... +..+..++.+.+  -..++..+..+..++.+.|+.++|.++++.
T Consensus       205 El~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            999999988763 4588899988888888887444 555666654432  134667888899999999999999999999


Q ss_pred             cccc
Q 022131          281 LDEE  284 (302)
Q Consensus       281 ~~~~  284 (302)
                      +.+.
T Consensus       284 l~~~  287 (306)
T 3dra_A          284 LKSK  287 (306)
T ss_dssp             HHHT
T ss_pred             HHhc
Confidence            8753

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.11  E-value=2.8e-08  Score=73.54  Aligned_cols=124  Identities=10%  Similarity=0.011  Sum_probs=64.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          119 SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       119 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      .+...+...|++++|...|++..    .|+...+..+...+...|++++|...+++..+..  +.+...+..+..++...
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHc
Confidence            34444445555555555554442    2344455555555555555555555555555443  34445555555555555


Q ss_pred             CCHHHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          199 NRMDMVREIWNDVKGSGLG--------------P-DLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      |++++|.+.+++..+....              | ....+..+..++...|++++|...|++..+
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5555555555555543110              0 114555566666666666666666666654

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.09  E-value=2.8e-09  Score=76.57  Aligned_cols=151  Identities=11%  Similarity=0.013  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHH-HhccCCHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKC-LCSCGRIEDAEE  135 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~  135 (302)
                      .|++++|...|++..+.. +.+...+..+...+...|++++|...++...+...  +...+...... +...+...+|..
T Consensus        19 ~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~~~~~~~a~~   95 (176)
T 2r5s_A           19 QGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQQAAESPELK   95 (176)
T ss_dssp             TTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             cCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHhhcccchHHH
Confidence            344444444444444331 11334444444444445555555544444433321  22221111111 111111222444


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022131          136 LLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDV  211 (302)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (302)
                      .+++..+..+ .+...+..+...+...|++++|...|+++.+......+...+..+...+...|+.++|...|++.
T Consensus        96 ~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~a  170 (176)
T 2r5s_A           96 RLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQ  170 (176)
T ss_dssp             HHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHH
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHH
Confidence            4444444321 23444444455555555555555555555444210011334444455555555555555554443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.07  E-value=8.3e-09  Score=81.19  Aligned_cols=217  Identities=9%  Similarity=0.003  Sum_probs=150.0

Q ss_pred             hcCCcchHHHHHHHHHhC------CCcccH----HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc----CCC
Q 022131           11 KINRIDMAERFLGEMIER------GVEPNV----VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR----GIE   76 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~------~~~~~~----~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~   76 (302)
                      ..|++++|.+++++..+.      +..++.    ..|+.....|..          .+++++|...|.+....    +-.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~----------~g~~~~A~~~~~~al~~~~~~~~~   72 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKN----------AKQLEQAKDAYLQEAEAHANNRSL   72 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHHHHHcCCH
Confidence            357788898888877652      112332    245555566666          66777888777776543    111


Q ss_pred             -CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC---
Q 022131           77 -PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP---  147 (302)
Q Consensus        77 -~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---  147 (302)
                       .-..+|+.+...|.+.|++++|...+++..+.    |-.. ...++..+...|.. |++++|+..|++..+.....   
T Consensus        73 ~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~  151 (307)
T 2ifu_A           73 FHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERL  151 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCCh
Confidence             12457888999999999999999999987654    2111 24578888899988 99999999999887641111   


Q ss_pred             --ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC---CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--
Q 022131          148 --SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC---VPN-MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD--  219 (302)
Q Consensus       148 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--  219 (302)
                        ...++..+...|...|++++|...|++..+....   .++ ...+..+..++...|++++|...|++.. .  .|+  
T Consensus       152 ~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~  228 (307)
T 2ifu_A          152 RQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFS  228 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTST
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCC
Confidence              1467888899999999999999999998764210   111 2356677778888899999999999988 4  232  


Q ss_pred             -H---HHHHHHHHHHHHcCCHHHHHHH
Q 022131          220 -L---DSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       220 -~---~~~~~li~~~~~~g~~~~a~~~  242 (302)
                       .   .....++.++ ..|+.+.+.++
T Consensus       229 ~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          229 GSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             TSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence             1   2344455554 56777666653

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.06  E-value=4.8e-08  Score=76.28  Aligned_cols=162  Identities=9%  Similarity=-0.081  Sum_probs=85.3

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCC-CcCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CC----hhhHHHH
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGI-CPTV----ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PS----AETYNCF  155 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l  155 (302)
                      +..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|+..+++..+.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            4556666677777776666655321 1121    12223455555566666666666666653211 11    1245666


Q ss_pred             HHHHHccCCchHHHHHHHHHHhC-----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHH
Q 022131          156 FKEYRGRKDANGAMKLYRQMKED-----GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS----GLGPD-LDSYTM  225 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~  225 (302)
                      ...|...|++++|...++++.+.     +..+....++..+...|.+.|++++|...+++..+.    +..+. ..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            66666666666666666666521     100111234556666666666666666666654431    11111 445555


Q ss_pred             HHHHHHHcC-CHHHHHHHHHHHH
Q 022131          226 LIHGLCEKQ-KWKEACQYFVEMI  247 (302)
Q Consensus       226 li~~~~~~g-~~~~a~~~~~~~~  247 (302)
                      +..++...| ++++|.+.+++..
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHH
Confidence            666666666 3466666666554

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.03  E-value=7.7e-08  Score=83.22  Aligned_cols=223  Identities=9%  Similarity=-0.011  Sum_probs=171.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHH-HHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHH
Q 022131           60 IRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSL-DKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLG  138 (302)
Q Consensus        60 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  138 (302)
                      .+.+..+|++..... +-+...|-..+..+...|+.++|. ++|++..... +.+...|...+...-+.|+++.|..+|+
T Consensus       325 ~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iye  402 (679)
T 4e6h_A          325 KARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTIL  402 (679)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            344567788887763 447788888888888999999997 9999998753 4577778888999999999999999999


Q ss_pred             HHHHCCC---------CCC------------hhhHHHHHHHHHccCCchHHHHHHHHHHhC-CCCCCCHHHHHHHHHHHH
Q 022131          139 EMVRNGV---------CPS------------AETYNCFFKEYRGRKDANGAMKLYRQMKED-GLCVPNMHSYNILIGMFM  196 (302)
Q Consensus       139 ~~~~~~~---------~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~  196 (302)
                      ++.+...         .|+            ...|...++...+.|+.+.|..+|....+. +  ......|...+..-.
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~--~~~~~lyi~~A~lE~  480 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK--LVTPDIYLENAYIEY  480 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG--GSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC--CCChHHHHHHHHHHH
Confidence            9886410         132            346888888888899999999999999887 4  233344444333333


Q ss_pred             hc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--chhhHHHHHHHHhhcchHHH
Q 022131          197 AL-NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP--QKVTFETLYRGLIQSDMLRT  273 (302)
Q Consensus       197 ~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~  273 (302)
                      +. ++.+.|..+|+...+. .+-+...|...+......|+.+.|..+|++.......+  ....|...++--.+.|+.+.
T Consensus       481 ~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~  559 (679)
T 4e6h_A          481 HISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNS  559 (679)
T ss_dssp             TTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHH
T ss_pred             HhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            44 4589999999998886 45577778888888888999999999999998753211  33577778887788999999


Q ss_pred             HHHHHHhccccCCC
Q 022131          274 WRRLKKKLDEESIT  287 (302)
Q Consensus       274 a~~~~~~~~~~~~~  287 (302)
                      +..+.+++.+....
T Consensus       560 ~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          560 VRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCC
Confidence            99999998876644

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.02  E-value=8.1e-08  Score=83.08  Aligned_cols=235  Identities=10%  Similarity=-0.026  Sum_probs=174.6

Q ss_pred             chHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHH-HHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 022131           16 DMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAE-KVFDEMRVRGIEPDVTSFSIVLHVYSRAHQ   94 (302)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~   94 (302)
                      +++..+|++++.. .+-+...|......+..          .++.++|. ++|++.... .+.+...|-..+...-+.|+
T Consensus       326 ~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~----------~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~  393 (679)
T 4e6h_A          326 ARMTYVYMQAAQH-VCFAPEIWFNMANYQGE----------KNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTK  393 (679)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHH----------HSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHH-cCCCHHHHHHHHHHHHh----------cCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCC
Confidence            3456778887765 34466778777777776          44556776 899998875 34566677888888899999


Q ss_pred             chhHHHHHHHHHhcCC---------Cc------------CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHH
Q 022131           95 PQLSLDKLNFMKEKGI---------CP------------TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYN  153 (302)
Q Consensus        95 ~~~a~~~~~~~~~~~~---------~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (302)
                      ++.|.++|+.+.+...         .|            ...+|...+....+.|..+.|..+|.+..+.-.......|.
T Consensus       394 ~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi  473 (679)
T 4e6h_A          394 IPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYL  473 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHH
Confidence            9999999999876410         13            23468888888889999999999999998761112334444


Q ss_pred             HHHHHHHcc-CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHH
Q 022131          154 CFFKEYRGR-KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP--DLDSYTMLIHGL  230 (302)
Q Consensus       154 ~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~  230 (302)
                      ..+..-.+. ++.+.|..+|+...+.-  +.+...+...++.....|+.+.|..+|+........+  ....|...+..-
T Consensus       474 ~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE  551 (679)
T 4e6h_A          474 ENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFE  551 (679)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            333333343 55899999999998873  5677778888888888999999999999998863322  356788888888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHh
Q 022131          231 CEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLI  266 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  266 (302)
                      ...|+.+.+..+.+++.+.  .|+......+++-|.
T Consensus       552 ~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry~  585 (679)
T 4e6h_A          552 SKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKYK  585 (679)
T ss_dssp             HHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHTC
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHhc
Confidence            8999999999999999874  566666666655554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.01  E-value=5.7e-07  Score=70.95  Aligned_cols=223  Identities=10%  Similarity=0.093  Sum_probs=147.2

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHH-HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEK-TIRNAEKVFDEMRVRGIEPDVTSFSIVLHVY   89 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   89 (302)
                      +.+..++|+++++.++..+ +-+..+|+.--..+..          .+ .++++++.++.+..... -+..+|+.-...+
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~----------l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL  133 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTS----------LNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLL  133 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------TTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHH----------hhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            3344567888888887763 2245567776666665          44 47788888888887753 3677787777766


Q ss_pred             Hhc-C-CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHH--------HHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           90 SRA-H-QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIE--------DAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        90 ~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      ... + ++++++++++.+.+...+ +..+|+.-...+.+.|.++        ++++.++++.+..+ -|...|+.....+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL  211 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLR  211 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            666 6 778888888888876533 6777776665555555555        78888888887654 4777787777777


Q ss_pred             HccCC-------chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHH
Q 022131          160 RGRKD-------ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRM--------------------DMVREIWNDVK  212 (302)
Q Consensus       160 ~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~  212 (302)
                      .+.+.       ++++++.+.+.....  +-|...|+-+-..+.+.|..                    .....+...+.
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  289 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMP  289 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCC
T ss_pred             HhccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHH
Confidence            77665       467777777777765  66777777766666665543                    22333333332


Q ss_pred             hCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          213 GSG-----LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       213 ~~~-----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ..+     -.++......++..|...|+.++|.++++.+.+.
T Consensus       290 ~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          290 SDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             C-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             hcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            221     1356677777888888888888888888887643

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.00  E-value=9.6e-08  Score=74.55  Aligned_cols=208  Identities=9%  Similarity=0.042  Sum_probs=142.6

Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHH---HHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           67 FDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVA---TYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      +.++......|+..+...+...+.-.-     .    .+.......+..   .+...+..+...|++++|..++++..+.
T Consensus        34 ~s~~e~g~~~~~~~~l~~i~~~l~~~~-----~----~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~  104 (293)
T 3u3w_A           34 VSRIESGAVYPSMDILQGIAAKLQIPI-----I----HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKK  104 (293)
T ss_dssp             HHHHHTTSCCCCHHHHHHHHHHHTCCT-----H----HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHhCcCH-----H----HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc
Confidence            344443335677777777776664221     1    111111122222   2334467788999999999999999875


Q ss_pred             CC-CCCh----hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHh-
Q 022131          144 GV-CPSA----ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVKG-  213 (302)
Q Consensus       144 ~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-  213 (302)
                      .. .|+.    ..+..+...+...+++++|...+.+........++    ..+++.+...|...|++++|...++++.+ 
T Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~  184 (293)
T 3u3w_A          105 EEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQ  184 (293)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            32 1221    13334666777888999999999999885321333    33689999999999999999999999874 


Q ss_pred             ---C-CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCc-hhhHHHHHHHHhhcc-hHHHHHHHHHhcc
Q 022131          214 ---S-GLGP-DLDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLPQ-KVTFETLYRGLIQSD-MLRTWRRLKKKLD  282 (302)
Q Consensus       214 ---~-~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g-~~~~a~~~~~~~~  282 (302)
                         . +..+ ...++..+...|...|++++|...+++..+.    +..+. ..++..+..++...| .+++|.+.+++..
T Consensus       185 ~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          185 LEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence               1 1122 2347888999999999999999999988653    22222 567888889999999 4689988887754


Q ss_pred             c
Q 022131          283 E  283 (302)
Q Consensus       283 ~  283 (302)
                      +
T Consensus       265 ~  265 (293)
T 3u3w_A          265 F  265 (293)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.00  E-value=5.3e-08  Score=72.04  Aligned_cols=127  Identities=11%  Similarity=-0.042  Sum_probs=107.8

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      .+..+...+...|++++|...+++..    .|+...+..+...+.+.|++++|...+++..+... .+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHH
Confidence            44556777888999999999998773    56788999999999999999999999999887643 46788889999999


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPN----------------MHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ..|++++|...+++..+..  +.+                ...+..+..++...|++++|...+++..+.
T Consensus        83 ~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL--RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT--TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HcccHHHHHHHHHHHHHhC--CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            9999999999999998864  222                377888999999999999999999999885

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=9.1e-08  Score=74.66  Aligned_cols=169  Identities=9%  Similarity=0.021  Sum_probs=120.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-----hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC--CCC--
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS-----AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC--VPN--  184 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~--  184 (302)
                      ...+...+..+...|++++|.+.+++..+......     ...+..+...+...|++++|...+.+..+....  .+.  
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            34556677788889999999999988877532211     122344556677888999999999988754211  111  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHh---C-CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----CCC-
Q 022131          185 MHSYNILIGMFMALNRMDMVREIWNDVKG---S-GLGP--DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG----LLP-  253 (302)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~p-  253 (302)
                      ..+++.+...|...|++++|...+++..+   . +..+  ...++..+...|...|++++|+..+++..+..    ... 
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            45788888999999999999999988763   2 1111  12578888899999999999999999886531    111 


Q ss_pred             chhhHHHHHHHHhhcchHHHH-HHHHHhcc
Q 022131          254 QKVTFETLYRGLIQSDMLRTW-RRLKKKLD  282 (302)
Q Consensus       254 ~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~  282 (302)
                      -..++..+..++...|+.++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            146778888889999999988 66666543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.99  E-value=1.5e-07  Score=73.40  Aligned_cols=170  Identities=9%  Similarity=-0.106  Sum_probs=127.7

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC-----HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC---CC--
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT-----VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC---PS--  148 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~--  148 (302)
                      ...+...+..+...|++++|.+.+.+..+.....+     ...+..+...+...|++++|+..+++..+....   +.  
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            44556677888999999999999998877643211     123445666778889999999999998864221   11  


Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHH---hCCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMK---EDGLCVP--NMHSYNILIGMFMALNRMDMVREIWNDVKGS----GLGP-  218 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-  218 (302)
                      ..+++.+...|...|++++|...+.+..   +.....+  ...++..+...|...|++++|...+++..+.    +... 
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            4578899999999999999999999987   3221011  1258889999999999999999999987653    1111 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHH-HHHHHHHHH
Q 022131          219 DLDSYTMLIHGLCEKQKWKEA-CQYFVEMIE  248 (302)
Q Consensus       219 ~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  248 (302)
                      -..+|..+..+|...|++++| ...+++...
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            157788899999999999999 777887653

>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=98.98  E-value=6e-08  Score=68.53  Aligned_cols=93  Identities=13%  Similarity=0.024  Sum_probs=38.9

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh
Q 022131          118 SSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA  197 (302)
Q Consensus       118 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (302)
                      ..+...+...|++++|...|++..+... .+..++..+...+...|++++|...+.+..+..  +.+...+..+..++..
T Consensus        17 ~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           17 KTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHH
Confidence            3334444444444444444444443321 233334444444444444444444444444332  2333344444444444


Q ss_pred             cCCHHHHHHHHHHHHh
Q 022131          198 LNRMDMVREIWNDVKG  213 (302)
Q Consensus       198 ~~~~~~a~~~~~~~~~  213 (302)
                      .|++++|...+++..+
T Consensus        94 ~~~~~~A~~~~~~a~~  109 (166)
T 1a17_A           94 LGKFRAALRDYETVVK  109 (166)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHH
Confidence            4444444444444443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.98  E-value=1.7e-08  Score=72.40  Aligned_cols=119  Identities=9%  Similarity=0.072  Sum_probs=54.8

Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHccCCc--hH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE-YRGRKDA--NG  167 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~  167 (302)
                      ..|++++|...++...+.. +.+...+..+...|...|++++|...|++..+... .+...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchHH
Confidence            3445555555555554443 22444555555555555555555555555544321 233444444444 4444554  55


Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          168 AMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      |...+++..+..  +.+...+..+...+...|++++|...++++.+
T Consensus       100 A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          100 TRAMIDKALALD--SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            555555554443  33344444444444455555555555544444

>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=98.97  E-value=7.6e-08  Score=67.96  Aligned_cols=131  Identities=12%  Similarity=0.032  Sum_probs=107.5

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      ...+..+...+...|++++|...+.+..+..  +.+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            4567777888899999999999999998875  5678899999999999999999999999988863 456788999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH--HHHHHhhcchHHHHHHHHHhccc
Q 022131          229 GLCEKQKWKEACQYFVEMIEKGLLPQKVTFET--LYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ++...|++++|...+++..+.. +.+...+..  ....+...|++++|...+++..+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            9999999999999999998752 223344433  34447788999999999877543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.94  E-value=1.3e-08  Score=78.96  Aligned_cols=195  Identities=8%  Similarity=-0.031  Sum_probs=134.2

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      +...+..+...+.+.|++++|...|++..+... .+...+..+..+|.+.|++++|+..+++..+... .+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            567788888999999999999999999988753 3788899999999999999999999999988743 46788899999


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      ++...|++++|...|.+..+..  +.+...+...+....+.   ..+. -+........+.+......+.. + ..|+.+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKK-RWNSIEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHH-HHHHHHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHH-HHHHHHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            9999999999999999887653  11111111112211111   1111 1222223334445555444433 2 368899


Q ss_pred             HHHHHHHHHHHCCCCCchhhH-HHHHHHHhhc-chHHHHHHHHHhcccc
Q 022131          238 EACQYFVEMIEKGLLPQKVTF-ETLYRGLIQS-DMLRTWRRLKKKLDEE  284 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~-g~~~~a~~~~~~~~~~  284 (302)
                      +|++.+++..+.  .|+.... ..+...+.+. +.++++.++|.+..+.
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999988887653  5554333 3333334444 6788999999988764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.94  E-value=1.2e-07  Score=65.93  Aligned_cols=102  Identities=9%  Similarity=0.052  Sum_probs=73.5

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      ...+..+...+...|++++|...|+++....  +.+...|..+..++...|++++|...|++..... +.+...|..+..
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            4456666667777777788887777777765  5667777777777777888888888887777652 335667777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCch
Q 022131          229 GLCEKQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                      +|...|++++|...|++..+.  .|+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~  137 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDE  137 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCH
Confidence            777888888888888777763  4554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.92  E-value=9.8e-08  Score=63.69  Aligned_cols=98  Identities=12%  Similarity=0.134  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE  158 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  158 (302)
                      ...+..+...+...|++++|.+.++++.+.. +.+..++..+...+.+.|++++|...++++.+... .+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHH
Confidence            3445555555555666666666666555543 22444555555555555555555555555554422 234445555555


Q ss_pred             HHccCCchHHHHHHHHHHhC
Q 022131          159 YRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~  178 (302)
                      +...|++++|...++++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            55555555555555555544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.92  E-value=1.2e-07  Score=63.31  Aligned_cols=96  Identities=15%  Similarity=0.175  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 022131          115 ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM  194 (302)
Q Consensus       115 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (302)
                      ..+..+...+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+..  +.+..++..+...
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~   86 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHH
Confidence            3444444445555555555555555444321 233444444444444444444444444444432  2334444444444


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 022131          195 FMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~  213 (302)
                      +...|++++|...++++.+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHH
Confidence            4444444444444444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.90  E-value=1.2e-07  Score=63.95  Aligned_cols=93  Identities=14%  Similarity=0.149  Sum_probs=44.8

Q ss_pred             HHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 022131          153 NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE  232 (302)
Q Consensus       153 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  232 (302)
                      ......|.+.|++++|+..|++..+..  +.+...|..+..++.+.|++++|...+++..+.. +.+...|..+..++..
T Consensus        17 ~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           17 KNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            333444444455555555554444443  3344445555555555555555555555544431 2234445555555555


Q ss_pred             cCCHHHHHHHHHHHHH
Q 022131          233 KQKWKEACQYFVEMIE  248 (302)
Q Consensus       233 ~g~~~~a~~~~~~~~~  248 (302)
                      .|++++|.+.|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            5555555555555544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.90  E-value=2.5e-08  Score=73.15  Aligned_cols=159  Identities=10%  Similarity=0.023  Sum_probs=100.7

Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CC-CCChhhHHHHHHHHHccCC
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN----GV-CPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~  164 (302)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +. .....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4567888888855554432 2235667778888888888888888888877652    11 1234566677777888888


Q ss_pred             chHHHHHHHHHHhCCCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcC
Q 022131          165 ANGAMKLYRQMKEDGLCVP-----NMHSYNILIGMFMALNRMDMVREIWNDVKGSGL-GPD----LDSYTMLIHGLCEKQ  234 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g  234 (302)
                      +++|...+.+..+.....+     ....+..+...+...|++++|...+++...... ..+    ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            8888888877655310011     234466677777788888888888877653210 111    233566677777788


Q ss_pred             CHHHHHHHHHHHHHC
Q 022131          235 KWKEACQYFVEMIEK  249 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~  249 (302)
                      ++++|.+.+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            888888887777664

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.90  E-value=1.3e-07  Score=63.73  Aligned_cols=96  Identities=11%  Similarity=0.027  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      .+......+.+.|++++|++.|++..+.. +.+..+|..+..+|.+.|++++|+..+++.++... .+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHHHH
Confidence            44455555555566666666665555543 22455555555555555555555555555555432 23445555555555


Q ss_pred             ccCCchHHHHHHHHHHhC
Q 022131          161 GRKDANGAMKLYRQMKED  178 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~  178 (302)
                      ..|++++|...|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.90  E-value=1e-07  Score=64.51  Aligned_cols=117  Identities=11%  Similarity=-0.008  Sum_probs=72.4

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+... .+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHH
Confidence            45566666777777777777777777776653 22566666666777777777777777777666532 34556666666


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      ++...|++++|...+++..+..  +.+...+..+..++...
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD--SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHh
Confidence            6666666666666666666553  23344444444444433

>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=98.89  E-value=7.1e-08  Score=69.18  Aligned_cols=119  Identities=13%  Similarity=0.204  Sum_probs=62.4

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH-HHhcCCH--H
Q 022131          126 SCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM-FMALNRM--D  202 (302)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  202 (302)
                      ..|++++|...+++..+... .+...+..+...|...|++++|...+++..+..  +.+...+..+..+ +...|++  +
T Consensus        22 ~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             -----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcchH
Confidence            34555555555555554422 344555555555666666666666666555543  3445555555555 4455555  6


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          203 MVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +|...+++..... +.+...+..+...+...|++++|...++++.+
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            6666665555531 22345555555555666666666666665554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.88  E-value=1.4e-07  Score=63.77  Aligned_cols=98  Identities=13%  Similarity=0.097  Sum_probs=59.7

Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLI  227 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  227 (302)
                      +...+..+...+...|++++|...+++..+..  +.+...+..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN--PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            34455555566666666666666666665553  3455566666666666666666666666665542 23455666666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 022131          228 HGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .++...|++++|...+++..+
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666666655

>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=98.87  E-value=6.2e-07  Score=70.75  Aligned_cols=219  Identities=10%  Similarity=0.007  Sum_probs=165.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhcc-C-CHHHHHHH
Q 022131           60 IRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH-QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSC-G-RIEDAEEL  136 (302)
Q Consensus        60 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a~~~  136 (302)
                      .++|+++++.+...+. -+..+|+.--..+...| .+++++.+++.+.....+ +..+|+.-...+.+. + ++++++.+
T Consensus        70 se~AL~lt~~~L~~nP-~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           70 SERALELTEIIVRMNP-AHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             SHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            3679999999998753 36778888888888888 599999999999988644 788888877777776 6 88999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCch--------HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC-------H
Q 022131          137 LGEMVRNGVCPSAETYNCFFKEYRGRKDAN--------GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR-------M  201 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~  201 (302)
                      ++++.+... -+..+|+.-...+...+.++        ++++.+.++.+..  +.|...|+.....+.+.+.       +
T Consensus       148 ~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          148 IHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccccchHHH
Confidence            999998754 47788877766666666666        8999999999886  6789999998888888776       6


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH--------------------HHHHHHHHHHHHCC-----CCCchh
Q 022131          202 DMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKW--------------------KEACQYFVEMIEKG-----LLPQKV  256 (302)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~p~~~  256 (302)
                      +++.+.+++.... .+-|...|+.+-..+.+.|..                    ....+...++...+     -.+++.
T Consensus       225 ~eELe~~~~aI~~-~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  303 (349)
T 3q7a_A          225 QDELIYILKSIHL-IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPL  303 (349)
T ss_dssp             HHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHH
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHH
Confidence            8888988888875 345778888777777666653                    33333333333221     135677


Q ss_pred             hHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          257 TFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       257 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .+..++..|...|+.++|.++++.+.+.
T Consensus       304 al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          304 ALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            8888999999999999999999998654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.87  E-value=1.3e-07  Score=63.70  Aligned_cols=117  Identities=9%  Similarity=-0.033  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE  158 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  158 (302)
                      ...+..+...+...|+++.|...+++..+.. +.+...+..+...+...|++++|...+++..+... .+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP-AYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc-cCHHHHHHHHHH
Confidence            3444455555555555555555555555443 22444555555555555555555555555554321 234444555555


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN  199 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (302)
                      +...|++++|...+.+..+..  +.+...+..+..++.+.|
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD--PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHh
Confidence            555555555555555554443  334444444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.86  E-value=1.4e-07  Score=63.54  Aligned_cols=116  Identities=9%  Similarity=-0.020  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 022131          115 ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM  194 (302)
Q Consensus       115 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (302)
                      ..+..+...+...|++++|...+++...... .+...+..+...+...|++++|...+.+..+..  +.+...+..+...
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--ccCHHHHHHHHHH
Confidence            3444555555555555555555555554321 234444555555555555555555555554443  3334444455555


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 022131          195 FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ  234 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  234 (302)
                      +...|++++|...+++..+.. +.+...+..+..++...|
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHh
Confidence            555555555555555544431 123334444444444333

>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=98.84  E-value=3.5e-08  Score=68.63  Aligned_cols=97  Identities=9%  Similarity=-0.097  Sum_probs=64.5

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIH  228 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  228 (302)
                      ...+..+...+...|++++|...|++.....  +.+...|..+..++...|++++|...|++..... +.+...+..+..
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            4455555666667777777777777766654  4566666667777777777777777777766642 234566666777


Q ss_pred             HHHHcCCHHHHHHHHHHHHH
Q 022131          229 GLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ++...|++++|...|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777665

>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=98.84  E-value=1.7e-07  Score=74.70  Aligned_cols=151  Identities=10%  Similarity=-0.032  Sum_probs=108.5

Q ss_pred             CCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC--------------hhhHHHHHHH
Q 022131           93 HQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS--------------AETYNCFFKE  158 (302)
Q Consensus        93 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~  158 (302)
                      +++++|...++...+.. +-+...+..+...+.+.|++++|...|++..+......              ...|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            44555665555443321 11456778888888888999999999888887643221              4677788888


Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      +...|++++|...+++..+..  +.+...+..+..++...|++++|...|++..+.. +.+...+..+..++...|+.++
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888775  5677788888888888888888888888877752 3356777777788888888877


Q ss_pred             H-HHHHHHHH
Q 022131          239 A-CQYFVEMI  247 (302)
Q Consensus       239 a-~~~~~~~~  247 (302)
                      | ...++.|.
T Consensus       283 a~~~~~~~~~  292 (336)
T 1p5q_A          283 REKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7 44555554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.84  E-value=2.1e-07  Score=64.76  Aligned_cols=98  Identities=15%  Similarity=0.048  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                      ...+..+...+.+.|++++|+..|++..+..+ .+...|..+..+|...|++++|...|++..+..  +.+...+..+..
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~--P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG--KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--CCCcHHHHHHHH
Confidence            44566666677777777777777777776533 356667777777777777777777777777665  455666777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 022131          194 MFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ++...|++++|...|++..+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777777664

>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=98.83  E-value=1.8e-07  Score=74.54  Aligned_cols=132  Identities=10%  Similarity=-0.039  Sum_probs=114.4

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC--------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT--------------VATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      +...+..+...+.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            466788899999999999999999999988753322              588999999999999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 022131          144 GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMV-REIWNDVK  212 (302)
Q Consensus       144 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  212 (302)
                      .. .+...+..+..+|...|++++|...|++..+..  +.+...+..+..++.+.|+.+++ ...++.|.
T Consensus       226 ~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 DS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            53 478899999999999999999999999999886  66788899999999999999988 44666654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.83  E-value=6.9e-08  Score=70.70  Aligned_cols=156  Identities=10%  Similarity=0.001  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCC-cCHHHHHHHHHHHhccCCHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GIC-PTVATYSSVVKCLCSCGRIE  131 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~  131 (302)
                      .|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +.. ....++..+...+...|+++
T Consensus         5 ~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            5 AHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             --CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            56667777744444332 2234566777777777777777777777766542    111 13345666667777777777


Q ss_pred             HHHHHHHHHHHC----CCCC--ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCH
Q 022131          132 DAEELLGEMVRN----GVCP--SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRM  201 (302)
Q Consensus       132 ~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~  201 (302)
                      +|...+++..+.    +..+  ....+..+...+...|++++|...+++.........+    ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            777777766543    1111  1334566666777777777777777766532110112    22345666667777777


Q ss_pred             HHHHHHHHHHHh
Q 022131          202 DMVREIWNDVKG  213 (302)
Q Consensus       202 ~~a~~~~~~~~~  213 (302)
                      ++|.+.+++..+
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777666554

>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=98.83  E-value=1.6e-05  Score=62.50  Aligned_cols=232  Identities=8%  Similarity=-0.016  Sum_probs=159.2

Q ss_pred             HHHhcCCcc-hHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 022131            8 GWCKINRID-MAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVL   86 (302)
Q Consensus         8 ~~~~~g~~~-~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   86 (302)
                      ...+.|.++ +|+++++.+...+ +-+...|+.--..+...+...........+++++.+++.+..... -+..+|+.-.
T Consensus        38 ~~~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~  115 (331)
T 3dss_A           38 QKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRC  115 (331)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            344667766 7999999998873 234556776655555422100001112337889999999988753 4788898888


Q ss_pred             HHHHhcCC--chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCC-HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc-
Q 022131           87 HVYSRAHQ--PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGR-IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR-  162 (302)
Q Consensus        87 ~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  162 (302)
                      ..+...++  +++++.+++.+.+.... +..+|+.-...+...|. ++++++.++++.+..+ -|..+|+.....+... 
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~  193 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLH  193 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHS
T ss_pred             HHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhh
Confidence            88888774  78999999999988744 88888888888888888 5899999999998765 5777887776666554 


Q ss_pred             -------------CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHhCCCCC
Q 022131          163 -------------KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL-----------NRMDMVREIWNDVKGSGLGP  218 (302)
Q Consensus       163 -------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~  218 (302)
                                   +.++++++.+.......  +-|...|+-+-..+.+.           +.++++++.++++.+.  .|
T Consensus       194 ~~~~~~~~~~~~~~~~~eEle~~~~ai~~~--P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~p  269 (331)
T 3dss_A          194 PQPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EP  269 (331)
T ss_dssp             CCC------CCCHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CT
T ss_pred             hccccccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cc
Confidence                         34677888888888775  67778887655555544           3467788888887774  35


Q ss_pred             CHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHH
Q 022131          219 DLDSYTMLIHGL-----CEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       219 ~~~~~~~li~~~-----~~~g~~~~a~~~~~~~~~  248 (302)
                      +. .|+.+..+.     -..|..+++...+.++++
T Consensus       270 d~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          270 EN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             TC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             cc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            43 333222111     134666777777777766

>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=98.80  E-value=2.1e-08  Score=73.43  Aligned_cols=164  Identities=7%  Similarity=-0.104  Sum_probs=71.1

Q ss_pred             HHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 022131           87 HVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDAN  166 (302)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  166 (302)
                      ......|+++.+.+.++.-.... ......+..+...+.+.|++++|+..|++..+.... +. .+...           
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~-~~~~~-----------   77 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TE-EWDDQ-----------   77 (198)
T ss_dssp             ----------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CT-TCCCH-----------
T ss_pred             hhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-cc-ccchh-----------
Confidence            33444555555555554322221 113445666666777777777777777777664211 11 00000           


Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                          ....-..    ......+..+..++...|++++|...+++..+. .+.+...+..+..++...|++++|...|++.
T Consensus        78 ----~~~~~~~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A           78 ----ILLDKKK----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKI-DKNNVKALYKLGVANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             ----HHHHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             ----hHHHHHH----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence                0000000    001234445555555555555555555555543 1234455555555555555555555555555


Q ss_pred             HHCCCCC-chhhHHHHHHHHhhcchHHHHH
Q 022131          247 IEKGLLP-QKVTFETLYRGLIQSDMLRTWR  275 (302)
Q Consensus       247 ~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~  275 (302)
                      .+.  .| +...+..+..++...++.+++.
T Consensus       149 l~~--~p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          149 ASL--NPNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HHH--STTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHH--CCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            442  22 3334444444444555544444

>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=98.77  E-value=6.2e-08  Score=67.33  Aligned_cols=97  Identities=7%  Similarity=-0.063  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                      ...+..+...+.+.|++++|+..|++...... .+...|..+..++...|++++|...|++.....  +.+...+..+..
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~lg~   97 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD--IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCchHHHHHHH
Confidence            33445555555566666666666666555432 345555555556666666666666666655553  344555555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 022131          194 MFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~  213 (302)
                      ++...|++++|...|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666665554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.76  E-value=5.3e-07  Score=68.87  Aligned_cols=197  Identities=11%  Similarity=-0.018  Sum_probs=141.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHH-------HHHHHhcCCchhHHHHHHHHHhc------------CCC------
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIV-------LHVYSRAHQPQLSLDKLNFMKEK------------GIC------  111 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~------------~~~------  111 (302)
                      .++...|.+.|.++.... +-....|..+       ...+.+.++..+++..+..-...            |.-      
T Consensus        19 ~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~~   97 (282)
T 4f3v_A           19 PMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITYP   97 (282)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEEE
T ss_pred             CCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccccc
Confidence            567889999999999875 3367788877       46666666666666666655441            100      


Q ss_pred             --cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC--HHH
Q 022131          112 --PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN--MHS  187 (302)
Q Consensus       112 --~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  187 (302)
                        --......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+......  .|.  ...
T Consensus        98 v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~--d~~~~~~a  173 (282)
T 4f3v_A           98 VTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP--DKFLAGAA  173 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS--CHHHHHHH
T ss_pred             cCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC--CcccHHHH
Confidence              002234556778888999999999999888654  443355566668899999999999998654431  121  346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHH
Q 022131          188 YNILIGMFMALNRMDMVREIWNDVKGSGLGPD--LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFET  260 (302)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  260 (302)
                      +..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...  .|+......
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~a  246 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAA  246 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHH
Confidence            77888899999999999999999986433253  346667778889999999999999999884  566333333

>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=98.76  E-value=9.3e-06  Score=63.78  Aligned_cols=214  Identities=11%  Similarity=-0.018  Sum_probs=158.0

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC--
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQ----------PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG--  128 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--  128 (302)
                      ++|+.+++.+...+. -+..+|+.--..+...+.          +++++.+++.+.....+ +..+|+.-...+.+.+  
T Consensus        47 ~eaL~~t~~~L~~nP-~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~  124 (331)
T 3dss_A           47 ESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  124 (331)
T ss_dssp             HHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcc
Confidence            578999999998742 255667765544444333          57889999999887644 7888888877787777  


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC-chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc---------
Q 022131          129 RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD-ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL---------  198 (302)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  198 (302)
                      ++++++.+++.+.+... -+..+|+.-..++...|. ++++++.+..+.+..  +.|...|+.....+.+.         
T Consensus       125 ~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~--p~N~SAW~~R~~ll~~l~~~~~~~~~  201 (331)
T 3dss_A          125 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQ  201 (331)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHHSCCC-----
T ss_pred             cHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhhhccccccc
Confidence            48999999999998765 588888888888888888 489999999999887  67888888877766655         


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-----------CCHHHHHHHHHHHHHCCCCCchhhHHHHH
Q 022131          199 -----NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK-----------QKWKEACQYFVEMIEKGLLPQKVTFETLY  262 (302)
Q Consensus       199 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  262 (302)
                           +.++++.+.+...... .+-|...|+-+-..+.+.           +.++++++.++++.+  +.||. .|..+.
T Consensus       202 ~~~~~~~~~eEle~~~~ai~~-~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle--~~pd~-~w~l~~  277 (331)
T 3dss_A          202 GRLPENVLLKELELVQNAFFT-DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE--LEPEN-KWCLLT  277 (331)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH--HCTTC-HHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh--hCccc-chHHHH
Confidence                 4578899999988875 345777777555554444           457899999999987  45765 343322


Q ss_pred             -----HHHhhcchHHHHHHHHHhccc
Q 022131          263 -----RGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       263 -----~~~~~~g~~~~a~~~~~~~~~  283 (302)
                           .+....|..+++...+.++.+
T Consensus       278 ~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          278 IILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccHHHHHHHHHHHHH
Confidence                 223346677788888888764

>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=98.75  E-value=5e-07  Score=60.67  Aligned_cols=95  Identities=14%  Similarity=0.059  Sum_probs=55.8

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022131          151 TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGL  230 (302)
Q Consensus       151 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  230 (302)
                      .+......+...|++++|...|.+..+..  +.+...+..+..++.+.|++++|...+++..+.. +.+...|..+..++
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            44445555556666666666666655553  4455566666666666666666666666655542 22455566666666


Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 022131          231 CEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~  248 (302)
                      ...|++++|...|++..+
T Consensus        83 ~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           83 IAVKEYASALETLDAART  100 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHH
Confidence            666666666666666654

>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=98.74  E-value=9.7e-07  Score=58.07  Aligned_cols=97  Identities=10%  Similarity=-0.089  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      ..+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..+... .+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            344445555555555555555555554443 12444455555555555555555555555544321 2344444444555


Q ss_pred             HccCCchHHHHHHHHHHhC
Q 022131          160 RGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~  178 (302)
                      ...|++++|...+.+..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555444

>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=98.73  E-value=4.5e-08  Score=71.68  Aligned_cols=99  Identities=7%  Similarity=-0.028  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C--------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLG-P--------------DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG  250 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~--------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  250 (302)
                      ..+..+...+...|++++|...|++....... |              ....+..+..++...|++++|+..+++..+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34444555555555666666555555543111 0              13688889999999999999999999998752


Q ss_pred             CCCchhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          251 LLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       251 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                       +.+...+..+..++...|++++|...+++..+..
T Consensus       119 -p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A          119 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             -cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence             3456788888999999999999999999877654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.73  E-value=2.9e-07  Score=70.28  Aligned_cols=190  Identities=11%  Similarity=-0.095  Sum_probs=140.2

Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHH-------HHHHhccCCHHHHHHHHHHHHHCCCCCC---------------
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSV-------VKCLCSCGRIEDAEELLGEMVRNGVCPS---------------  148 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  148 (302)
                      ..++...|.+.|.++.+.... ....|..+       ...+.+.++..+++..++.-.+  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            579999999999999988633 56777777       4555555555666555555444  1111               


Q ss_pred             -------hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--
Q 022131          149 -------AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD--  219 (302)
Q Consensus       149 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--  219 (302)
                             ......+...+...|++++|.+.|..+...+   |+......+...+.+.+++++|+..|+...... .|.  
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~---p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~  170 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG---SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLA  170 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT---CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccH
Confidence                   2234556777889999999999999998764   444366666778899999999999998665531 111  


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCc--hhhHHHHHHHHhhcchHHHHHHHHHhccccCCC
Q 022131          220 LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQ--KVTFETLYRGLIQSDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       220 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  287 (302)
                      ...+..+-.++...|++++|+..|++.......|.  .........++.+.|+.++|...++++......
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            24677788899999999999999999975433253  345666778899999999999999998876554

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.72  E-value=1.1e-07  Score=73.65  Aligned_cols=194  Identities=9%  Similarity=-0.002  Sum_probs=130.8

Q ss_pred             cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc
Q 022131           33 NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP  112 (302)
Q Consensus        33 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  112 (302)
                      +...+..+...+..          .|++++|+..|++..... +.+...+..+..++.+.|++++|...+++..+.. +.
T Consensus         3 ~a~~~~~~g~~~~~----------~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~   70 (281)
T 2c2l_A            3 SAQELKEQGNRLFV----------GRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQ   70 (281)
T ss_dssp             CHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TT
T ss_pred             hHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CC
Confidence            45667777778888          888999999999999874 3378899999999999999999999999998875 34


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +...+..+..++...|++++|...|++..+.... +...+...+....+.   ..... +........ +.+......+.
T Consensus        71 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~-~~~~~i~~~l~  144 (281)
T 2c2l_A           71 SVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKR-WNSIEERRI-HQESELHSYLT  144 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHH-HHHHHHTCC-CCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHH-HHHHHHHHH-hhhHHHHHHHH
Confidence            7788999999999999999999999998765221 111111111111111   11111 222223322 44444444433


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHHc-CCHHHHHHHHHHHHH
Q 022131          193 GMFMALNRMDMVREIWNDVKGSGLGPDL-DSYTMLIHGLCEK-QKWKEACQYFVEMIE  248 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~-g~~~~a~~~~~~~~~  248 (302)
                      . + ..|+.++|.+.++...+.  .|+. .....+-..+.+. +.+++|.++|.+..+
T Consensus       145 ~-l-~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          145 R-L-IAAERERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             H-H-HHHHHHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             H-H-HHHHHHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            2 2 368899999988887765  4544 3334444444444 678899999988754

>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=98.71  E-value=2e-06  Score=58.44  Aligned_cols=98  Identities=10%  Similarity=-0.012  Sum_probs=65.4

Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLI  227 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  227 (302)
                      +...+..+...+...|++++|...|.......  +.+...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            45566666666666777777777776666654  4556666677777777777777777777766642 23556666777


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 022131          228 HGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .++...|++++|...|++..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            777777777777777777654

>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=98.70  E-value=4.1e-07  Score=61.21  Aligned_cols=109  Identities=16%  Similarity=0.209  Sum_probs=62.6

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----HHHH
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL--GPD----LDSY  223 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  223 (302)
                      ..+..+...+...|++++|...+.+..+..  +.+...+..+...+...|++++|...+++......  .++    ...+
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            344455555566666666666666665553  34555566666666666666666666666554311  111    4556


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHH
Q 022131          224 TMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLY  262 (302)
Q Consensus       224 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  262 (302)
                      ..+..++...|++++|...|++..+.  .|+......+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~  119 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQ  119 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHH
Confidence            66666677777777777777776653  34444444333

>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=98.70  E-value=1.7e-06  Score=56.92  Aligned_cols=94  Identities=11%  Similarity=-0.032  Sum_probs=42.9

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLC  231 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  231 (302)
                      +..+...+...|++++|...+++.....  +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++.
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            3334444444444444444444444432  2334444444444444455555555554444431 123444444444555


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 022131          232 EKQKWKEACQYFVEMIE  248 (302)
Q Consensus       232 ~~g~~~~a~~~~~~~~~  248 (302)
                      ..|++++|...+++..+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555554443

>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=98.69  E-value=1e-06  Score=59.16  Aligned_cols=95  Identities=12%  Similarity=0.003  Sum_probs=52.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMF  195 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (302)
                      .+..+...+.+.|++++|+..|++..+... .+...|..+..++...|++++|...+++..+..  +.+...+..+..++
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~   82 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHH
Confidence            444455555555555555555555554422 244555555555555555555555555555553  34455555555566


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 022131          196 MALNRMDMVREIWNDVKG  213 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~  213 (302)
                      ...|++++|...|++..+
T Consensus        83 ~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           83 IAVKEYASALETLDAART  100 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHH
Confidence            666666666666655554

>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=98.69  E-value=6.7e-07  Score=60.25  Aligned_cols=104  Identities=13%  Similarity=0.097  Sum_probs=57.6

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCC----HHHHH
Q 022131          151 TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG--LGPD----LDSYT  224 (302)
Q Consensus       151 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~  224 (302)
                      ++..+...+.+.|++++|+..|.+..+..  +.+...|..+..+|...|++++|.+.+++..+..  ..++    ..+|.
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            34445555555666666666666555543  4455556666666666666666666666554421  0111    13455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhH
Q 022131          225 MLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTF  258 (302)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  258 (302)
                      .+..++...|++++|++.|++..+  ..||+.+.
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  119 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELV  119 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHH
Confidence            556666667777777777776655  24554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.69  E-value=1.1e-06  Score=60.53  Aligned_cols=96  Identities=7%  Similarity=-0.150  Sum_probs=62.8

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      ..+..+...+...|++++|...|++.....  +.+...|..+..++...|++++|...|++..... +.+...+..+..+
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   95 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            344455556666677777777777666654  4566666666677777777777777777766642 3345566666677


Q ss_pred             HHHcCCHHHHHHHHHHHHH
Q 022131          230 LCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       230 ~~~~g~~~~a~~~~~~~~~  248 (302)
                      +...|++++|...|++..+
T Consensus        96 ~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7777777777777776655

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.67  E-value=1.8e-06  Score=60.98  Aligned_cols=96  Identities=15%  Similarity=0.032  Sum_probs=51.9

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      ..+..+...+...|++++|...|++..+..  +.+...+..+..++...|++++|...+++..+.. +.+...|..+..+
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            344444555555555555555555555543  3345555555555555555555555555555532 2235555555555


Q ss_pred             HHHcCCHHHHHHHHHHHHH
Q 022131          230 LCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       230 ~~~~g~~~~a~~~~~~~~~  248 (302)
                      +...|++++|...|++..+
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            5566666666666655554

>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=98.66  E-value=7.4e-07  Score=60.05  Aligned_cols=98  Identities=7%  Similarity=0.039  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC--CC----hhhHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC--PS----AETYN  153 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  153 (302)
                      ..+..+...+.+.|++++|+..|++..+... .+...|..+..+|.+.|++++|+..+++.++....  ++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            3455666677777777777777777766542 25666777777777777777777777766553210  11    12444


Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhC
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .+..++...|++++|.+.|++....
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4555555666666666666665554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.64  E-value=7.1e-07  Score=58.17  Aligned_cols=56  Identities=9%  Similarity=0.002  Sum_probs=21.7

Q ss_pred             HHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      +...+...|++++|...+++..+..  +.+...+..+...+...|++++|...+++..
T Consensus        12 ~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~   67 (112)
T 2kck_A           12 EGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVI   67 (112)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3333334444444444444333332  2233333333334444444444444444433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.63  E-value=6.4e-07  Score=58.38  Aligned_cols=97  Identities=11%  Similarity=-0.031  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCP--SAETYNCFFK  157 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  157 (302)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+... .  +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIE-DEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSC-CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-ccchHHHHHHHHH
Confidence            344445555555555555555555554443 12344455555555555555555555555554321 2  3444445555


Q ss_pred             HHHcc-CCchHHHHHHHHHHhC
Q 022131          158 EYRGR-KDANGAMKLYRQMKED  178 (302)
Q Consensus       158 ~~~~~-~~~~~a~~~~~~~~~~  178 (302)
                      ++... |++++|.+.+......
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            55555 5555555555555444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.63  E-value=1.3e-06  Score=61.66  Aligned_cols=100  Identities=11%  Similarity=-0.014  Sum_probs=78.8

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      +...+..+...+.+.|++++|+..|++..+... .+...|..+..+|.+.|++++|+..+++..+... .+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            456777788888888888888888888877653 3677788888888888888888888888887643 35777888888


Q ss_pred             HHHccCCchHHHHHHHHHHhCC
Q 022131          158 EYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      ++...|++++|...|++..+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            8888888888888888887764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.62  E-value=8.9e-07  Score=60.92  Aligned_cols=92  Identities=9%  Similarity=-0.013  Sum_probs=42.0

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          119 SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       119 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      .+...+.+.|++++|...|++...... .+...|..+..++...|++++|...|++.....  +.+...+..+..++...
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD--INEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHc
Confidence            334444444444444444444444322 234444444444444444444444444444443  33344444444444555


Q ss_pred             CCHHHHHHHHHHHHh
Q 022131          199 NRMDMVREIWNDVKG  213 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~  213 (302)
                      |++++|...|+...+
T Consensus       100 g~~~~A~~~~~~al~  114 (142)
T 2xcb_A          100 GDLDGAESGFYSARA  114 (142)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555544443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.60  E-value=9.6e-05  Score=61.93  Aligned_cols=122  Identities=7%  Similarity=-0.067  Sum_probs=63.6

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA-LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGL  230 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  230 (302)
                      |...+....+.++.+.|..+|... +..  ..+...|......-.. .++.+.|..+|+...+. .+-+...+...+...
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~--~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~-~~~~~~~~~~yid~e  364 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNE--GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK-HPDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTS--CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH-CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCC--CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            333334444455566666666666 221  2233333322221112 22466777777766654 222344445555555


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          231 CEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      ...|+.+.|..+|+++.     .....|...+.--...|+.+.+..++++..
T Consensus       365 ~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          365 LRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66677777777776651     134455555555555677777766665544

>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=98.60  E-value=2.2e-06  Score=58.31  Aligned_cols=98  Identities=11%  Similarity=0.006  Sum_probs=54.2

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHH
Q 022131          113 TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILI  192 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  192 (302)
                      +...+..+...+...|++++|...|++...... .+...+..+..++...|++++|...+++..+..  +.+...+..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHHHHH
Confidence            344555555555555555555555555554422 234555555555555566666665555555543  34455555566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 022131          193 GMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .++...|++++|...|++..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666655544

>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=98.59  E-value=8e-07  Score=59.73  Aligned_cols=62  Identities=10%  Similarity=0.025  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   66 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            344445555555555555555555554443 22344445555555555555555555555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.59  E-value=7.7e-06  Score=67.32  Aligned_cols=192  Identities=13%  Similarity=0.061  Sum_probs=138.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCC----------------HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCC-CcCH----H
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPD----------------VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGI-CPTV----A  115 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~  115 (302)
                      .|++++|++.|.++.+......                ...+..+...|...|++++|.+.+..+...-. .++.    .
T Consensus        17 ~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   96 (434)
T 4b4t_Q           17 EKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKV   96 (434)
T ss_dssp             HTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHH
Confidence            7889999999999987532211                12477889999999999999999988765311 1121    2


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC----CCCCHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRN----GVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL----CVPNMH  186 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~  186 (302)
                      +.+.+-..+...|+.+.|..+++.....    +..+ -..++..+...+...|++++|..++.++...-.    .+....
T Consensus        97 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~  176 (434)
T 4b4t_Q           97 LKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVD  176 (434)
T ss_dssp             HHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHH
Confidence            3344445556678999999999887642    2222 356778899999999999999999998865311    022355


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCC-C-C--HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGS--GLG-P-D--LDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-~-~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ++..++..|...|++++|..++++....  .+. | .  ...+..+...+...|++++|...|.+..+
T Consensus       177 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          177 VHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            7888899999999999999999887642  121 1 1  24566667777888999999998887754

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.59  E-value=3.5e-06  Score=57.93  Aligned_cols=98  Identities=7%  Similarity=-0.073  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT----VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYN  153 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (302)
                      +...+..+...+...|++++|...|++..+..  |+    ...+..+..+|...|++++|...+++..+... .+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG-GDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS-CCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc-cCHHHHH
Confidence            45566666666666777777777777666553  33    45566666666666666666666666665422 2455555


Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhC
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .+..++...|++++|...+++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6666666666666666666666655

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.58  E-value=6.5e-06  Score=56.59  Aligned_cols=96  Identities=14%  Similarity=0.014  Sum_probs=55.8

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYT  224 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (302)
                      ...+..+...+...|++++|...|++..+..   |+    ...+..+..++...|++++|...+++..+. .+.+...+.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~  103 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD---ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK-DGGDVKALY  103 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TSCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc---ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh-CccCHHHHH
Confidence            4445555555555666666666666555542   33    455555666666666666666666665554 122455566


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          225 MLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .+..++...|++++|...|++..+
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666666666666666666666655

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.57  E-value=9.6e-06  Score=66.73  Aligned_cols=197  Identities=8%  Similarity=-0.080  Sum_probs=140.1

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcC----------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CC
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPT----------------VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PS  148 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~  148 (302)
                      .+.+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+.+..+...-.. ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            4456778999999999999987632211                134778999999999999999999987653111 12


Q ss_pred             h----hhHHHHHHHHHccCCchHHHHHHHHHHh----CCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC--
Q 022131          149 A----ETYNCFFKEYRGRKDANGAMKLYRQMKE----DGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--GL--  216 (302)
Q Consensus       149 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~--  216 (302)
                      .    .+.+.+-..+...|+.+.+..++.....    .+....-..++..+...+...|++++|..+++.+...  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    1233333444567889999998887653    2321233567788999999999999999999987642  11  


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCC-C-c--hhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          217 GP-DLDSYTMLIHGLCEKQKWKEACQYFVEMIEK--GLL-P-Q--KVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       217 ~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~-p-~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      ++ ....+..++..|...|++++|..++++....  .+. | .  ...+..+...+...|++++|...+.+..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            11 2467888999999999999999999987643  121 1 1  2455666777888999999988776654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.52  E-value=1.9e-06  Score=57.49  Aligned_cols=89  Identities=7%  Similarity=-0.071  Sum_probs=39.5

Q ss_pred             HHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          156 FKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                      ...+...|++++|...+++..+..  +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++...|+
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            334444444444444444444443  3344444444444444444444444444444431 1133344444444444444


Q ss_pred             HHHHHHHHHHHH
Q 022131          236 WKEACQYFVEMI  247 (302)
Q Consensus       236 ~~~a~~~~~~~~  247 (302)
                      +++|...+++..
T Consensus       101 ~~~A~~~~~~al  112 (121)
T 1hxi_A          101 ANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.51  E-value=1.4e-06  Score=60.80  Aligned_cols=133  Identities=10%  Similarity=-0.013  Sum_probs=61.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CC----hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC----CHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PS----AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP----NMH  186 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~  186 (302)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.....+    ...
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            3444444444555555555555444332100 00    12344444455555555555555554433210001    123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGS----GLG-PDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .+..+...+...|++++|.+.+++..+.    +.. .....+..+...+...|++++|.+.+++..+
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            4455555666666666666666554432    100 0123445555566666666666666665543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.47  E-value=8.6e-06  Score=54.61  Aligned_cols=91  Identities=12%  Similarity=0.021  Sum_probs=52.1

Q ss_pred             HHHHHHccCCchHHHHHHHHHHhCCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHH
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKEDGLCVPNM---HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD---LDSYTMLIH  228 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~  228 (302)
                      +...+...|++++|...|..+.+..  +.+.   ..+..+..++...|++++|...++...+.. +.+   ...+..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            3444555666666666666665543  2222   355555566666666666666666665532 112   445556666


Q ss_pred             HHHHcCCHHHHHHHHHHHHH
Q 022131          229 GLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ++...|++++|...|+++.+
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666655

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.47  E-value=3e-06  Score=56.49  Aligned_cols=92  Identities=4%  Similarity=-0.080  Sum_probs=49.0

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          119 SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       119 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      .+...+.+.|++++|...|++..+... .+...|..+..++...|++++|...+++..+..  +.+...+..+..++...
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHc
Confidence            344445555555555555555554422 244555555555555555555555555555543  33455555555555555


Q ss_pred             CCHHHHHHHHHHHHh
Q 022131          199 NRMDMVREIWNDVKG  213 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~  213 (302)
                      |++++|...+++..+
T Consensus        99 g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           99 HNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555555544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.43  E-value=2.6e-06  Score=59.49  Aligned_cols=135  Identities=10%  Similarity=-0.037  Sum_probs=102.1

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-C
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVKGS----GLGP-D  219 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~  219 (302)
                      ..++..+...+...|++++|...+.+..+.....++    ..++..+...+...|++++|.+.+++..+.    +.++ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            356778888899999999999999988764210112    246788889999999999999999987653    1111 1


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-chhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          220 LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLP-QKVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       220 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      ...+..+...+...|++++|...+++..+.    +..+ ...++..+...+...|++++|.+.+++..+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456778888999999999999999988653    2111 235677788899999999999999987654

>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=98.43  E-value=7e-06  Score=68.23  Aligned_cols=149  Identities=8%  Similarity=-0.008  Sum_probs=95.3

Q ss_pred             CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC--------------hhhHHHHHHHH
Q 022131           94 QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS--------------AETYNCFFKEY  159 (302)
Q Consensus        94 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~  159 (302)
                      ++++|...|+...+.. +-....+..+...+.+.|++++|...|++..+......              ...|..+..+|
T Consensus       249 ~~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~  327 (457)
T 1kt0_A          249 SFEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCY  327 (457)
T ss_dssp             EEECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555554433321 11345677788888888888888888888876532111              46667777777


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      .+.|++++|+..+++..+..  +.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++...++.+++
T Consensus       328 ~~~g~~~~A~~~~~~al~~~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          328 LKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777765  5567777777777777777777777777777642 22445666666666666666655


Q ss_pred             HH-HHHHH
Q 022131          240 CQ-YFVEM  246 (302)
Q Consensus       240 ~~-~~~~~  246 (302)
                      .+ .+..|
T Consensus       405 ~~~~~~~~  412 (457)
T 1kt0_A          405 DRRIYANM  412 (457)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            53 34444

>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=98.42  E-value=2.3e-06  Score=71.54  Aligned_cols=116  Identities=13%  Similarity=0.058  Sum_probs=65.8

Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      +...|++++|.+.+++..+..  +.+...+..+..++.+.|++++|.+.+++..+.. +.+...+..+..+|...|++++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            445566666666666666553  4456666666666666666666666666666642 2345566666666666667777


Q ss_pred             HHHHHHHHHHCCCCC-chhhHHHHHHH--HhhcchHHHHHHHHH
Q 022131          239 ACQYFVEMIEKGLLP-QKVTFETLYRG--LIQSDMLRTWRRLKK  279 (302)
Q Consensus       239 a~~~~~~~~~~~~~p-~~~~~~~l~~~--~~~~g~~~~a~~~~~  279 (302)
                      |.+.+++..+.  .| +...+..+..+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            77666666553  23 22333334333  556666666666665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.41  E-value=9.3e-07  Score=58.55  Aligned_cols=86  Identities=9%  Similarity=0.005  Sum_probs=40.6

Q ss_pred             cCCchhHHHHHHHHHhcC--CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHH
Q 022131           92 AHQPQLSLDKLNFMKEKG--ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      .|++++|+..|++..+.+  -+.+...+..+..+|...|++++|+..|++..+... -+...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHH
Confidence            345555555555555442  112333445555555555555555555555554422 23444555555555555555555


Q ss_pred             HHHHHHHhC
Q 022131          170 KLYRQMKED  178 (302)
Q Consensus       170 ~~~~~~~~~  178 (302)
                      ..+++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555555444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.41  E-value=2.6e-05  Score=52.20  Aligned_cols=92  Identities=11%  Similarity=0.016  Sum_probs=46.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCCh---hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC---HHHHHHHHH
Q 022131          120 VVKCLCSCGRIEDAEELLGEMVRNGVCPSA---ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN---MHSYNILIG  193 (302)
Q Consensus       120 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~  193 (302)
                      +...+...|++++|...|+++.+... .+.   ..+..+..++...|++++|...++++.+..  +.+   ...+..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHH
Confidence            33444455555555555555554321 111   244445555555555555555555555443  222   344555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 022131          194 MFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ++...|++++|...|+.+.+.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            555556666666655555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.41  E-value=8e-06  Score=57.40  Aligned_cols=121  Identities=10%  Similarity=0.071  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                      ...+......+.+.|++++|+..|++..+.-  +.          .....++....  +..+   .  +.+...+..+..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~--~~----------~~~~~~~~~~~--~~~~---~--~~~~~~~~nla~   71 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRL--DT----------LILREKPGEPE--WVEL---D--RKNIPLYANMSQ   71 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HH----------HHHTSCTTSHH--HHHH---H--HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HH----------hcccCCCCHHH--HHHH---H--HHHHHHHHHHHH
Confidence            4456666667777777777777777665430  00          00000000000  0000   1  334567777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchh
Q 022131          194 MFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKV  256 (302)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  256 (302)
                      ++.+.|++++|...+++..... +.+...|..+..++...|++++|...|++..+.  .|+..
T Consensus        72 ~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~  131 (162)
T 3rkv_A           72 CYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAA  131 (162)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGH
T ss_pred             HHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCH
Confidence            8888888888888888887752 346778888888888888888888888888773  45543

>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=98.41  E-value=1.5e-06  Score=72.57  Aligned_cols=119  Identities=13%  Similarity=0.015  Sum_probs=68.5

Q ss_pred             HHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCH
Q 022131          122 KCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRM  201 (302)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (302)
                      ..+.+.|++++|+..+++..+... .+..++..+..+|...|++++|...+++..+..  +.+...+..+..+|...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCH
Confidence            344556666666666666665422 245666666666666666666666666666664  45566666666666777777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHH
Q 022131          202 DMVREIWNDVKGSGLGPDLDSYTMLIHG--LCEKQKWKEACQYFV  244 (302)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  244 (302)
                      ++|.+.+++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        91 ~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            77777776666542 1123344444444  566667777776666

>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=98.41  E-value=6.4e-06  Score=68.45  Aligned_cols=133  Identities=8%  Similarity=-0.062  Sum_probs=107.7

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcC--------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPT--------------VATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      ....+..+...+.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++.++.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            355778888999999999999999999988642211              578999999999999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHH-HHHHHHh
Q 022131          144 GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVRE-IWNDVKG  213 (302)
Q Consensus       144 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~  213 (302)
                      .. .+...|..+..+|...|++++|...|++..+..  +.+...+..+..++.+.++.+++.+ .+..|..
T Consensus       347 ~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          347 DS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             ST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             CC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            53 478889999999999999999999999999885  5677788888888888888887764 4454443

>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=98.39  E-value=1.1e-05  Score=65.07  Aligned_cols=120  Identities=8%  Similarity=-0.008  Sum_probs=88.3

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHh----------------CCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKE----------------DGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG  215 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~----------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (302)
                      +..+...+.+.|++++|...|++..+                ..  +.+...|..+..++.+.|++++|.+.+++..+..
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~--~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ--PVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH--HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            44445555566666666666655554                21  3456778888899999999999999999998863


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-chhhHHHHHHHHhhcchHHHHHH
Q 022131          216 LGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-QKVTFETLYRGLIQSDMLRTWRR  276 (302)
Q Consensus       216 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~  276 (302)
                       +.+...+..+..+|...|++++|...|++..+.  .| +...+..+..++...++.+++.+
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             346788888999999999999999999998874  44 45566667777777777776654

>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=98.35  E-value=9.8e-06  Score=65.31  Aligned_cols=122  Identities=11%  Similarity=-0.063  Sum_probs=79.1

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHC---------------CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEMVRN---------------GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC  181 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  181 (302)
                      +..+...+.+.|++++|+..|++..+.               -.+.+...|..+..+|.+.|++++|...+++..+..  
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID--  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC--
Confidence            455555566666666666666655541               011234567777777778888888888888877764  


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                      +.+...+..+..++...|++++|...|++..+.. +.+...+..+..++...++.+++.+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777777778888888888888888777652 2355566666666666665555543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.32  E-value=2.7e-06  Score=56.24  Aligned_cols=86  Identities=12%  Similarity=0.079  Sum_probs=50.3

Q ss_pred             cCCchHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 022131          162 RKDANGAMKLYRQMKEDGLC-VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEAC  240 (302)
Q Consensus       162 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  240 (302)
                      .|++++|...|++..+.+.. +.+...+..+..++...|++++|...+++..+.. +-+...+..+..++...|++++|.
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            45566666666666655210 2334556666666666777777777777666642 234566666666667777777777


Q ss_pred             HHHHHHHH
Q 022131          241 QYFVEMIE  248 (302)
Q Consensus       241 ~~~~~~~~  248 (302)
                      ..+++..+
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77766655

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.30  E-value=0.0002  Score=59.97  Aligned_cols=204  Identities=6%  Similarity=-0.068  Sum_probs=138.2

Q ss_pred             chHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCc
Q 022131           16 DMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQP   95 (302)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   95 (302)
                      +++..+|+++... .+-+...|...+..+.+          .++++.|..+|++....  +.+...+.    .|....+.
T Consensus       196 ~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~----------~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~  258 (493)
T 2uy1_A          196 SRMHFIHNYILDS-FYYAEEVYFFYSEYLIG----------IGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDE  258 (493)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTC
T ss_pred             HHHHHHHHHHHHc-CCCCHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcch
Confidence            3466788887765 34456778877777777          67789999999999987  33433332    22222222


Q ss_pred             hhHHHHHHHHHhcC------------CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc-c
Q 022131           96 QLSLDKLNFMKEKG------------ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG-R  162 (302)
Q Consensus        96 ~~a~~~~~~~~~~~------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~  162 (302)
                      ++.   ++.+.+.-            .......|...+....+.++.+.|..+|++. +. ...+...|......-.. .
T Consensus       259 ~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~  333 (493)
T 2uy1_A          259 EAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYAT  333 (493)
T ss_dssp             THH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHH
T ss_pred             hHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHC
Confidence            222   33332210            0112345777777777888999999999999 32 22344445432222222 3


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      ++.+.|..+|+...+..  +.+...+...++.....|+.+.|..+|+.+.     .....|...+..=...|+.+.+..+
T Consensus       334 ~d~~~ar~ife~al~~~--~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v  406 (493)
T 2uy1_A          334 GSRATPYNIFSSGLLKH--PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFREL  406 (493)
T ss_dssp             CCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            36999999999998864  3345566777887888999999999999973     2578888888877888999999999


Q ss_pred             HHHHHH
Q 022131          243 FVEMIE  248 (302)
Q Consensus       243 ~~~~~~  248 (302)
                      +++..+
T Consensus       407 ~~~~~~  412 (493)
T 2uy1_A          407 VDQKMD  412 (493)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988864

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.29  E-value=1.7e-05  Score=55.72  Aligned_cols=100  Identities=11%  Similarity=0.095  Sum_probs=60.7

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhc--------CC---------CcCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK--------GI---------CPTVATYSSVVKCLCSCGRIEDAEELLGEM  140 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~---------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  140 (302)
                      ....+......+.+.|++++|+..|.+..+.        ..         +.+...|..+..+|.+.|++++|+..+++.
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4567888899999999999999999998765        00         112234455555555555555555555555


Q ss_pred             HHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhC
Q 022131          141 VRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       141 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      ++... .+...|..+..++...|++++|...|.+..+.
T Consensus        90 l~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           90 LKREE-TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcCC-cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            54422 23445555555555555555555555555544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.27  E-value=8.1e-06  Score=64.98  Aligned_cols=95  Identities=11%  Similarity=-0.061  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChh------------------hHHHHHHHHHccCCchHHHHHHHHHH
Q 022131          115 ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAE------------------TYNCFFKEYRGRKDANGAMKLYRQMK  176 (302)
Q Consensus       115 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------~~~~l~~~~~~~~~~~~a~~~~~~~~  176 (302)
                      ..+..+...+.+.|++++|...|++.....  |+..                  .|..+..+|.+.|++++|...+++..
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345566666667777777777777766531  2222                  33444444444444444444444444


Q ss_pred             hCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          177 EDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      +..  +.+...+..+..+|...|++++|...|++..+
T Consensus       258 ~~~--p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          258 TEE--EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            432  23344444444444444444444444444433

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.23  E-value=0.00013  Score=49.66  Aligned_cols=112  Identities=11%  Similarity=-0.016  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRIED  132 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~  132 (302)
                      .+++++|++.|++..+.| .|+..    |...|...+..++|.+.|++..+.|   +...+..+...|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            678888888888888876 33333    6666777777788888888888775   56677777777776    778888


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCchHHHHHHHHHHhCC
Q 022131          133 AEELLGEMVRNGVCPSAETYNCFFKEYRG----RKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  179 (302)
                      |..+|++..+.|   ++..+..+...|..    .++.++|...|++..+.|
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            888888887763   55666777777776    677888888888777765

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.23  E-value=7.2e-06  Score=65.28  Aligned_cols=131  Identities=7%  Similarity=-0.016  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHH------------------HHHHHHHHHhccCCHHHHHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVA------------------TYSSVVKCLCSCGRIEDAEELLGEM  140 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~~  140 (302)
                      ...+..+...+.+.|++++|...|++..+..  |+..                  .|..+..+|.+.|++++|+..+++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3456677788889999999999999987763  3332                  7888999999999999999999999


Q ss_pred             HHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhC
Q 022131          141 VRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM-FMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       141 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~  214 (302)
                      .+... .+...|..+..+|...|++++|...|++..+..  +.+...+..+... ....+..+.+...|..+...
T Consensus       257 l~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          257 LTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------------------
T ss_pred             HHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            88643 477899999999999999999999999998764  3444555555544 23345667777788877654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.17  E-value=4.6e-05  Score=49.96  Aligned_cols=79  Identities=13%  Similarity=-0.002  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          167 GAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       167 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                      .+...+++..+..  +.+...+..+...+...|++++|...+++..+.. +.+...|..+..++...|++++|...|++.
T Consensus         3 ~a~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQG--TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTT--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4556666666654  4566677777777777777777777777776642 335666777777777777777777777777


Q ss_pred             HH
Q 022131          247 IE  248 (302)
Q Consensus       247 ~~  248 (302)
                      .+
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.16  E-value=0.00057  Score=58.29  Aligned_cols=171  Identities=8%  Similarity=-0.055  Sum_probs=135.0

Q ss_pred             CchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCC----------HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC
Q 022131           94 QPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGR----------IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK  163 (302)
Q Consensus        94 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  163 (302)
                      ..++|++.++.+...+.. +..+|+.--.++...|+          +++++..++.+.+... -+..+|+.-..++.+.+
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcc
Confidence            346789999999887643 66677776666666666          8999999999998754 47888888888888888


Q ss_pred             --CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-------
Q 022131          164 --DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN-RMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK-------  233 (302)
Q Consensus       164 --~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-------  233 (302)
                        +++++++.++++.+..  +.+...|+.-..+..+.| .++++.+.++++.+.. +-|...|+.....+.+.       
T Consensus       122 ~~~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          122 EPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence              6699999999999987  688999998888888888 8999999999988863 34778888877776653       


Q ss_pred             -------CCHHHHHHHHHHHHHCCCCC-chhhHHHHHHHHhhcchH
Q 022131          234 -------QKWKEACQYFVEMIEKGLLP-QKVTFETLYRGLIQSDML  271 (302)
Q Consensus       234 -------g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  271 (302)
                             +.++++++.+++....  .| |...|..+-..+.+.++.
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHHSCCCCC
T ss_pred             ccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHHhcCCCc
Confidence                   5679999999998874  45 556777766666666653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.16  E-value=4e-06  Score=54.56  Aligned_cols=65  Identities=6%  Similarity=0.003  Sum_probs=45.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          184 NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      +...+..+...+...|++++|...+++..+. .+.+...+..+..++...|++++|+..+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA-QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            4456666777777777777777777777665 2335667777777777778888888777777653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.16  E-value=0.0002  Score=61.11  Aligned_cols=169  Identities=9%  Similarity=-0.029  Sum_probs=137.5

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccC--
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQ----------PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCG--  128 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--  128 (302)
                      ++|++.++++...+. -+..+|+.--.++...|+          ++++++.++.+.+...+ +..+|+.-...+.+.+  
T Consensus        46 eeal~~~~~~l~~nP-~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           46 ESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHHCc-hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccc
Confidence            678999999998753 366788877777777777          89999999999988754 8888998888889999  


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC-CchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc---------
Q 022131          129 RIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRK-DANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL---------  198 (302)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  198 (302)
                      ++++++..++++.+... -+..+|+.-..++...| .++++++.+.++.+..  +.|...|+.....+.+.         
T Consensus       124 ~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          124 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             cHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhccccccccc
Confidence            77999999999999865 47888988888888888 8899999999999886  67888998887777663         


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 022131          199 -----NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQK  235 (302)
Q Consensus       199 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  235 (302)
                           +.++++.+.+++..... +-|...|+..-..+.+.++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             ccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                 55789999998888752 3467788877776666665

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.15  E-value=7.3e-06  Score=68.30  Aligned_cols=127  Identities=8%  Similarity=-0.111  Sum_probs=91.3

Q ss_pred             HHHHhcCCcchHHHHHHHHHhC-----C--CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-----C
Q 022131            7 YGWCKINRIDMAERFLGEMIER-----G--VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-----G   74 (302)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----~   74 (302)
                      ..+...|++++|+.++++.++.     |  .+-...+++.+..+|..          .|++++|+.++++..+.     |
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~----------~g~~~eA~~~~~~aL~i~~~~lG  386 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSY----------LQAYEEASHYARRMVDGYMKLYH  386 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH----------hcCHHHHHHHHHHHHHHHHHHcC
Confidence            3456789999999999988653     1  22235688999999999          66667777766665432     2


Q ss_pred             --CCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc-----CCC-c-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           75 --IEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK-----GIC-P-TVATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        75 --~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                        .+-...+++.|...|...|++++|..++++..+.     |.. | ...+...+-.++...+.+++|+.++..+.+.
T Consensus       387 ~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          387 HNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              2223467899999999999999999999887543     321 2 2334566667777888899999999888764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.15  E-value=5.4e-05  Score=52.39  Aligned_cols=28  Identities=11%  Similarity=-0.033  Sum_probs=16.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      .+......+.+.|++++|+..|++.++.
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l   40 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEI   40 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            3444555556666666666666666654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.12  E-value=5.8e-05  Score=51.45  Aligned_cols=113  Identities=6%  Similarity=-0.100  Sum_probs=91.7

Q ss_pred             cCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 022131           12 INRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR   91 (302)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   91 (302)
                      .+++++|.+.|++..+.|. |+..    +-..|..          .+.+++|.+.|++..+.|   +...+..|...|..
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~----------g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~   69 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNS----------QINKQKLFQYLSKACELN---SGNGCRFLGDFYEN   69 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCT----------TSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHc----------CCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHc
Confidence            4578999999999998873 3332    4444444          344566999999999875   67888888888888


Q ss_pred             ----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCC
Q 022131           92 ----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRIEDAEELLGEMVRNGV  145 (302)
Q Consensus        92 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~  145 (302)
                          .+++++|...|++..+.|   +...+..+...|..    .++.++|..+|++..+.|.
T Consensus        70 G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           70 GKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence                889999999999999886   66778888888888    8999999999999998864

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.11  E-value=2.7e-05  Score=64.86  Aligned_cols=126  Identities=10%  Similarity=-0.049  Sum_probs=95.1

Q ss_pred             HHHccCCchHHHHHHHHHHhC-----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCC-CC-CHHHHH
Q 022131          158 EYRGRKDANGAMKLYRQMKED-----GLCVP-NMHSYNILIGMFMALNRMDMVREIWNDVKG-----SGL-GP-DLDSYT  224 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~-~~~~~~  224 (302)
                      .+...|++++|..++++..+.     |...| ...+++.|..+|...|++++|..++++...     .|. .| ...+++
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            356889999999999887653     11122 346789999999999999999999988664     121 12 346789


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCch-hhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          225 MLIHGLCEKQKWKEACQYFVEMIEK-----GL-LPQK-VTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                      .|...|...|++++|..++++..+-     |- .|+. .+...+-.++...+.+++|+.++.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987642     21 2322 3455666788899999999999998876

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.03  E-value=0.00013  Score=50.54  Aligned_cols=64  Identities=6%  Similarity=-0.132  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCc------CH-----HHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICP------TV-----ATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      ...+......+.+.|++++|+..|++..+.....      +.     ..|..+..++.+.|++++|+..+++.++
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3445666777888999999999999998764321      12     2566666666666676666666666655

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.99  E-value=5.8e-05  Score=49.43  Aligned_cols=62  Identities=13%  Similarity=0.014  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMV  141 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  141 (302)
                      ...+..+...+...|++++|...+++..+... .+...|..+..++...|++++|...|++..
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444444444444444444444444444321 133344444444444444444444444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.94  E-value=0.00017  Score=44.59  Aligned_cols=61  Identities=8%  Similarity=0.087  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      .+..+...+...|++++|...+++..+.. +.+...+..+..++.+.|++++|...+++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            33334444444444444444444443332 11333333444444444444444444444333

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.93  E-value=5.9e-05  Score=48.83  Aligned_cols=64  Identities=11%  Similarity=-0.043  Sum_probs=35.4

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          149 AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ...+..+...+...|++++|...+++..+..  +.+...+..+..++...|++++|.+.+++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3344455555555555555555555555543  344555555555566666666666666655553

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.90  E-value=0.00024  Score=43.91  Aligned_cols=60  Identities=13%  Similarity=0.226  Sum_probs=25.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          188 YNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3334444444444444444444443321 12333444444444444444444444444433

>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=97.88  E-value=0.00013  Score=50.37  Aligned_cols=110  Identities=9%  Similarity=0.055  Sum_probs=80.4

Q ss_pred             HHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 022131            9 WCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHV   88 (302)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   88 (302)
                      ..+.+.+++|++.++...+.. +-+...|..+-.++...+.+.......+.+++|+..|++..+.+. .+..+|..+..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP-~~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc-CcHHHHHHHHHH
Confidence            346678999999999998773 447788888888888854444333233457799999999998753 367788889999


Q ss_pred             HHhcC-----------CchhHHHHHHHHHhcCCCcCHHHHHHHHH
Q 022131           89 YSRAH-----------QPQLSLDKLNFMKEKGICPTVATYSSVVK  122 (302)
Q Consensus        89 ~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  122 (302)
                      |...|           ++++|++.|++..+.  .|+...|...+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            98764           788888888888876  455555544443

>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=97.87  E-value=6.7e-05  Score=51.80  Aligned_cols=97  Identities=6%  Similarity=0.030  Sum_probs=55.5

Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR----------MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE  232 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  232 (302)
                      +.+++|...++...+..  +.+...|..+..++...++          +++|+..|++..+.. +-+...|..+-.+|..
T Consensus        16 ~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            34455555555555554  4455555555555554443          346666666666542 2244566666666655


Q ss_pred             c-----------CCHHHHHHHHHHHHHCCCCCchhhHHHHHHH
Q 022131          233 K-----------QKWKEACQYFVEMIEKGLLPQKVTFETLYRG  264 (302)
Q Consensus       233 ~-----------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  264 (302)
                      .           |++++|++.|++.++  +.|+...|...+..
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~  133 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            4           478888888888877  46766655554443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.86  E-value=0.0016  Score=51.57  Aligned_cols=141  Identities=10%  Similarity=-0.016  Sum_probs=63.4

Q ss_pred             CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh---cC-Cc-hhHH---HH
Q 022131           30 VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR---AH-QP-QLSL---DK  101 (302)
Q Consensus        30 ~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~---~~-~~-~~a~---~~  101 (302)
                      .+.+...|...+++........     .....+|..+|++..+.... ....+..+.-+|..   .+ .. ....   ..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~-----~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a  263 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGD-----DKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTE  263 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCS-----HHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCC-----HHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHH
Confidence            3556677777776655422211     45667788888888876311 34444444444331   00 00 0000   01


Q ss_pred             HHHHHh-cCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhC
Q 022131          102 LNFMKE-KGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       102 ~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      ++.... ...+.+..++..+...+...|++++|...+++....+  |+...|..+...+...|++++|.+.+.+....
T Consensus       264 ~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          264 IDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             HHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            111000 0112344444444444444455555555555554442  34444444444444555555555555444444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.82  E-value=0.0002  Score=45.53  Aligned_cols=66  Identities=9%  Similarity=0.070  Sum_probs=44.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +.+...+..+...+...|++++|...|++..+.. +.+...|..+..+|...|++++|.+.+++..+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3455666677777777777777777777766642 23455667777777777777777777776654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.74  E-value=0.00015  Score=46.14  Aligned_cols=63  Identities=16%  Similarity=0.077  Sum_probs=31.5

Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMV  141 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  141 (302)
                      +...+..+...+.+.|++++|+..|++..+.... +...|..+..+|...|++++|...|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444455555555555555555555555544321 33445555555555555555555555444

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.69  E-value=0.0011  Score=52.48  Aligned_cols=76  Identities=16%  Similarity=0.027  Sum_probs=61.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHH
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETL  261 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  261 (302)
                      +.+..++..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++...  +.|...+|...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~~~  349 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLYWI  349 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHHHH
Confidence            5677788887777777899999999999988864  7877777778888889999999999998877  46777776543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.38  E-value=0.0015  Score=41.10  Aligned_cols=58  Identities=12%  Similarity=0.208  Sum_probs=38.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          191 LIGMFMALNRMDMVREIWNDVKGSGLGPDLD-SYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ....+...|++++|...+++..+.. +.+.. .+..+..++...|++++|...|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3445566777777777777776642 23445 6667777777777777777777777663

>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=97.18  E-value=0.0011  Score=54.28  Aligned_cols=92  Identities=7%  Similarity=-0.081  Sum_probs=68.3

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCC-------CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-----
Q 022131            6 IYGWCKINRIDMAERFLGEMIERG-------VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-----   73 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----   73 (302)
                      +..+.+.|++++|++++++.++..       .+....+++.+..+|..          .|++++|+.++++....     
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~----------~g~~~eA~~~~~~~L~i~~~~l  363 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACIN----------LGLLEEALFYGTRTMEPYRIFF  363 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHh----------hccHHHHHHHHHHHHHhHHHHc
Confidence            455668899999999999987641       22235678889999998          77777777777766542     


Q ss_pred             C-CCC-CHHHHHHHHHHHHhcCCchhHHHHHHHHHh
Q 022131           74 G-IEP-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKE  107 (302)
Q Consensus        74 ~-~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  107 (302)
                      | ..| ...+++.|...|...|++++|..++++..+
T Consensus       364 g~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          364 PGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            2 122 345788889999999999999988887754

>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=97.18  E-value=0.0011  Score=54.47  Aligned_cols=26  Identities=12%  Similarity=0.101  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      +++.|...|...|++++|..++++..
T Consensus       384 ~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          384 MWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            34555555555555555555555443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.16  E-value=0.031  Score=42.63  Aligned_cols=106  Identities=13%  Similarity=0.135  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHHhCCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CCH
Q 022131          166 NGAMKLYRQMKEDGLCVPN---MHSYNILIGMFMAL-----NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK-QKW  236 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~  236 (302)
                      ..+...+++..+..   |+   ...|..+...|.+.     |+.++|.+.|++....+..-+..++......++.. |+.
T Consensus       180 ~~A~a~lerAleLD---P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          180 HAAVMMLERACDLW---PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHC---TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHhC---CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            56778888888874   44   67889999999984     99999999999999853322478888888888884 999


Q ss_pred             HHHHHHHHHHHHCCCC--CchhhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          237 KEACQYFVEMIEKGLL--PQKVTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       237 ~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      +++.+.+++.++....  |+...        ...+.-++|..++++..
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~l--------an~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKL--------LVILSQKRARWLKAHVQ  296 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHH--------HHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhH--------HHHHHHHHHHHHHHHhH
Confidence            9999999999986555  54332        23334456666665543

>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=97.14  E-value=0.00083  Score=55.10  Aligned_cols=86  Identities=6%  Similarity=-0.157  Sum_probs=62.9

Q ss_pred             cCCcchHHHHHHHHHhC-----C--CcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhc-----C-CCC-
Q 022131           12 INRIDMAERFLGEMIER-----G--VEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVR-----G-IEP-   77 (302)
Q Consensus        12 ~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-   77 (302)
                      .|++++|+.++++.++.     |  .+....+++.+..+|..          .|++++|+.++++..+.     | -.| 
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~----------~g~~~eA~~~~~~aL~i~~~~lG~~Hp~  380 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLY----------MQDWEGALKYGQKIIKPYSKHYPVYSLN  380 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHHSCSSCHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHh----------hcCHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            47889999999987653     1  22234688999999999          66777777777766542     2 122 


Q ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHh
Q 022131           78 DVTSFSIVLHVYSRAHQPQLSLDKLNFMKE  107 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  107 (302)
                      ...+++.|...|...|++++|..++++..+
T Consensus       381 ~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          381 VASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            345788888999999999999988887754

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.10  E-value=0.0068  Score=37.77  Aligned_cols=68  Identities=10%  Similarity=-0.047  Sum_probs=46.4

Q ss_pred             CCCHHHHHHHHHHHHhcCC---chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC
Q 022131           76 EPDVTSFSIVLHVYSRAHQ---PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNG  144 (302)
Q Consensus        76 ~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  144 (302)
                      +.|...+..+..++...++   .++|..++++..+.... +......+...+.+.|++++|+..|+++.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3456666666666654444   57777777777776533 66677777777777788888888887777763

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.09  E-value=0.021  Score=43.52  Aligned_cols=97  Identities=9%  Similarity=0.087  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHh-----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhcc-
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPD---VTSFSIVLHVYSR-----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSC-  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-  127 (302)
                      ......|...+++..+.  .|+   -..|..+...|.+     -|+.++|.+.|++.++.+..-+..++......+++. 
T Consensus       176 l~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~  253 (301)
T 3u64_A          176 PDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPL  253 (301)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTT
T ss_pred             HHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhc
Confidence            66778888888888887  344   4578888888888     489999999999998876433467777888888884 


Q ss_pred             CCHHHHHHHHHHHHHCCCC--CChhhHHHH
Q 022131          128 GRIEDAEELLGEMVRNGVC--PSAETYNCF  155 (302)
Q Consensus       128 ~~~~~a~~~~~~~~~~~~~--~~~~~~~~l  155 (302)
                      |+.+++.+.+++.......  |+....+.+
T Consensus       254 gd~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          254 NNRAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             TCHHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             CCHHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            8999999999999987655  555444443

>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=97.09  E-value=0.003  Score=51.82  Aligned_cols=93  Identities=6%  Similarity=-0.068  Sum_probs=61.0

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHCC---CCC----ChhhHHHHHHHHHccCCchHHHHHHHHHHhC-----CCCCCC-HHH
Q 022131          121 VKCLCSCGRIEDAEELLGEMVRNG---VCP----SAETYNCFFKEYRGRKDANGAMKLYRQMKED-----GLCVPN-MHS  187 (302)
Q Consensus       121 l~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~-~~~  187 (302)
                      +.-+.+.|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|+.++++....     |...|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            334456677888888887776531   112    2456777777888888888887777766432     211232 345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          188 YNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      ++.|...|...|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            77778888888888888888777554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.01  E-value=0.025  Score=50.40  Aligned_cols=130  Identities=9%  Similarity=0.112  Sum_probs=71.6

Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR  162 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  162 (302)
                      ..++..+.+.|.++.|.++.+.         ..   .-.......|++++|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            5555555556665555544421         10   1122334456666666664332      3556677777777777


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      ++++.|.+.|.++..          |..+...+...|+.+...++-+.....|      -++....+|.+.|++++|+++
T Consensus       695 ~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~  758 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKDL  758 (814)
T ss_dssp             TCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHH
T ss_pred             CCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHHH
Confidence            777777777766532          2234444455666666555555554432      223344456667777777777


Q ss_pred             HHHH
Q 022131          243 FVEM  246 (302)
Q Consensus       243 ~~~~  246 (302)
                      +.++
T Consensus       759 ~~~~  762 (814)
T 3mkq_A          759 LIKS  762 (814)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            6655

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.00  E-value=0.0062  Score=38.11  Aligned_cols=56  Identities=11%  Similarity=0.148  Sum_probs=32.5

Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMH-SYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ..+...|++++|...+++..+..  +.+.. .+..+..++...|++++|.+.|++..+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34455566666666666665553  33445 5555666666666666666666665553

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.90  E-value=0.011  Score=40.39  Aligned_cols=85  Identities=12%  Similarity=0.043  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC---CchhHHHHHHHHHhcCCCc--CHHHHHHHHHHHhccCCHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH---QPQLSLDKLNFMKEKGICP--TVATYSSVVKCLCSCGRIE  131 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~  131 (302)
                      ...+..+.+-|.+..+.|. ++..+...+..++++++   +.++++.+++...+.+ .|  ....+-.+.-+|.+.|+++
T Consensus        11 ~~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~   88 (152)
T 1pc2_A           11 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHH
Confidence            5566777777777776654 57777777777888877   5668888888888764 23  3445556677778888888


Q ss_pred             HHHHHHHHHHHC
Q 022131          132 DAEELLGEMVRN  143 (302)
Q Consensus       132 ~a~~~~~~~~~~  143 (302)
                      +|.+.++.+.+.
T Consensus        89 ~A~~y~~~lL~i  100 (152)
T 1pc2_A           89 KALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            888888888875

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.88  E-value=0.027  Score=34.97  Aligned_cols=46  Identities=11%  Similarity=0.136  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          202 DMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ++|..++++..+. -+-++.....+...+.+.|++++|+..|+++.+
T Consensus        26 ~~A~~~l~~AL~~-dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           26 DEVSLLLEQALQL-EPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             HHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH-CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4444444444443 112333334444444444444444444444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.87  E-value=0.027  Score=38.44  Aligned_cols=78  Identities=12%  Similarity=0.111  Sum_probs=42.8

Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          168 AMKLYRQMKEDGLCVPNMHSYNILIGMFMALN---RMDMVREIWNDVKGSGLGP--DLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      +.+-|.+....+  +++..+...+..++++.+   +.+++..+++...+.. .|  +...+-.+.-+|.+.|++++|.+.
T Consensus        17 ~~~~y~~e~~~~--~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           17 FEKKFQSEKAAG--SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHTT--CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHccC--CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            344444444444  455555556666666655   4446666666655542 12  234444455556666666666666


Q ss_pred             HHHHHH
Q 022131          243 FVEMIE  248 (302)
Q Consensus       243 ~~~~~~  248 (302)
                      ++.+.+
T Consensus        94 ~~~lL~   99 (152)
T 1pc2_A           94 VRGLLQ   99 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666665

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.70  E-value=0.027  Score=35.76  Aligned_cols=25  Identities=4%  Similarity=-0.312  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFM  105 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~  105 (302)
                      .+..+...+.+.++++.|...|+..
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~A   31 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQA   31 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHH
Confidence            3334444444444444444444444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.57  E-value=0.11  Score=36.50  Aligned_cols=44  Identities=16%  Similarity=0.245  Sum_probs=20.5

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHH
Q 022131          126 SCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQM  175 (302)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  175 (302)
                      ..|+++.|.++.+.+      .+...|..+.......|+++-|.+.|.+.
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            344444444444433      23444555555555555555555444443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.57  E-value=0.052  Score=34.42  Aligned_cols=70  Identities=9%  Similarity=-0.020  Sum_probs=44.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch
Q 022131          184 NMHSYNILIGMFMALNRMDMVREIWNDVKGS------GLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                      +..-+..+...+.+.++++.|...++...+.      .-.+....+..+..++.+.|+++.|...++++.+  +.|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCC
Confidence            4445556666666777777777776665542      0123456667777777777777777777777765  34544

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.46  E-value=0.073  Score=36.05  Aligned_cols=100  Identities=13%  Similarity=0.076  Sum_probs=45.8

Q ss_pred             CHHHHHHHHHHHHhcCCc------hhHHHHHHHHHhcCCCcCHH-HHHHHHHHH------hccCCHHHHHHHHHHHHHCC
Q 022131           78 DVTSFSIVLHVYSRAHQP------QLSLDKLNFMKEKGICPTVA-TYSSVVKCL------CSCGRIEDAEELLGEMVRNG  144 (302)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~------~~~~~~~~a~~~~~~~~~~~  144 (302)
                      |..+|-..+...-+.|++      ++..++|++.... ++|+.. .|...+...      ...++.++|.++|+.+...+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            556666666666666666      5666666666553 344310 111111111      11244455555555544332


Q ss_pred             CCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          145 VCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       145 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      -.. ...|....+.-.+.|+...|.+++......+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            111 3344444444444455555555555544443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.38  E-value=0.048  Score=48.61  Aligned_cols=45  Identities=9%  Similarity=-0.002  Sum_probs=22.8

Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDV  211 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (302)
                      ...|+++.|.++.+.       ..+...|..+...+.+.++++.|.+.|.++
T Consensus       663 l~~~~~~~A~~~~~~-------~~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTD-------ESAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTT-------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHh-------hCcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            344555555554321       134445555555555555555555555554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.35  E-value=0.11  Score=34.42  Aligned_cols=66  Identities=14%  Similarity=0.161  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLL  252 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  252 (302)
                      ..+...++.....|.-|+-.++...+.. +.+|++...-.+..+|.+.|+..+|.+++.+..+.|++
T Consensus        92 e~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           92 EHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            4456666777777777777777777544 24667777777777777777777777777777777653

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.92  E-value=0.18  Score=34.12  Aligned_cols=101  Identities=6%  Similarity=0.066  Sum_probs=47.7

Q ss_pred             CHHHHHHHHHHHhccCCH------HHHHHHHHHHHHCCCCCCh-hhHHHHHHH------HHccCCchHHHHHHHHHHhCC
Q 022131          113 TVATYSSVVKCLCSCGRI------EDAEELLGEMVRNGVCPSA-ETYNCFFKE------YRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       113 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+. ..|...+..      +...++.++|.++|+.+...+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            455555555555555655      5566666666554 33331 111111111      112245555555555554442


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 022131          180 LCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                        +-=...|....+.=.+.|+++.|.+++......+.
T Consensus        91 --KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           91 --KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             --TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             --HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence              22244444444444555555555555555555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.92  E-value=0.19  Score=33.00  Aligned_cols=86  Identities=12%  Similarity=0.010  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchh---HHHHHHHHHhcCCC-cCHHHHHHHHHHHhccCCHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQL---SLDKLNFMKEKGIC-PTVATYSSVVKCLCSCGRIED  132 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~  132 (302)
                      ...+..+.+-|.+....|. |+..+--.+..++.++.+...   .+.+++.+.+.+.+ -.....-.+.-++.+.|++++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHH
Confidence            4455556666666655543 566666666667777766555   77777777665411 123334455667778888888


Q ss_pred             HHHHHHHHHHC
Q 022131          133 AEELLGEMVRN  143 (302)
Q Consensus       133 a~~~~~~~~~~  143 (302)
                      |.+.++.+.+.
T Consensus        93 A~~~~~~lL~~  103 (126)
T 1nzn_A           93 ALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888887775

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.27  Score=34.47  Aligned_cols=51  Identities=12%  Similarity=0.173  Sum_probs=42.1

Q ss_pred             HHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          156 FKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      +......|+++.|.++.+.+       .+...|..|.....+.|+++-|.+.|.+..+
T Consensus        12 F~LAL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D   62 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQHS   62 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HHHHHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC
Confidence            34456889999999997766       3677899999999999999999999987654

>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=0.21  Score=33.19  Aligned_cols=138  Identities=11%  Similarity=0.036  Sum_probs=90.8

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 022131          127 CGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVRE  206 (302)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (302)
                      .|.+++..++..+....   .+..-+|.++--....-+-+-..++++.+-..    .|.          ...|+...+..
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki----FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY----FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG----SCG----------GGCSCTHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh----cCc----------HhhhcHHHHHH
Confidence            45666666666665553   34445555554444444444444444444332    111          12344444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          207 IWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      .+-.+-     .+....+..+.....+|+-++-.+++..+.. +-+|++...-.+..||.+.|+..++.+++++.-+.|+
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            433322     3556778888899999999999999999644 3578888999999999999999999999999999887


Q ss_pred             C
Q 022131          287 T  287 (302)
Q Consensus       287 ~  287 (302)
                      .
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.77  E-value=0.074  Score=34.93  Aligned_cols=78  Identities=13%  Similarity=0.100  Sum_probs=41.0

Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHH
Q 022131          168 AMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDM---VREIWNDVKGSGLGP--DLDSYTMLIHGLCEKQKWKEACQY  242 (302)
Q Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~  242 (302)
                      +.+-|......+  .++..+-..+..++.+..+...   ++.+++.+.+.+ .|  .....-.+.-++.+.|++++|.+.
T Consensus        20 ~~~~y~~e~~~~--~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           20 FEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhccC--CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            333444443433  3555555555556665555444   555566555542 12  223333455556666666666666


Q ss_pred             HHHHHH
Q 022131          243 FVEMIE  248 (302)
Q Consensus       243 ~~~~~~  248 (302)
                      ++.+.+
T Consensus        97 ~~~lL~  102 (126)
T 1nzn_A           97 VRGLLQ  102 (126)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.54  E-value=0.15  Score=44.70  Aligned_cols=130  Identities=13%  Similarity=0.072  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHhcCC-chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCC-HHHHHHHHHHHHHC------CCCC-Ch--
Q 022131           81 SFSIVLHVYSRAHQ-PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGR-IEDAEELLGEMVRN------GVCP-SA--  149 (302)
Q Consensus        81 ~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~------~~~~-~~--  149 (302)
                      ....+++.+...++ .+.|..+++++.......+......++..+.+.++ --+|.+++.+..+.      ...+ +.  
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            34556666666766 48899999999887433222223344544444442 23455555554321      1111 11  


Q ss_pred             --------hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          150 --------ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       150 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                              .....=.+.+...|+++.|+.+-++.....  +.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a--PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA--LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC--chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    111222345678999999999999998885  6678899999999999999999999998874

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.51  E-value=0.23  Score=40.07  Aligned_cols=73  Identities=12%  Similarity=-0.021  Sum_probs=55.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCchhhHHHH
Q 022131          188 YNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE-----KGLLPQKVTFETL  261 (302)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~~l  261 (302)
                      ...++..+...|+.+++...+..+... .+.+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            455667777888888888888877664 355777888888888888888888888887654     3888887664443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.01  E-value=0.23  Score=43.64  Aligned_cols=125  Identities=14%  Similarity=0.105  Sum_probs=77.5

Q ss_pred             HHHHHHHhcCC-cchHHHHHHHHHhCCCcccHHH--HHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHh-------c
Q 022131            4 SLIYGWCKINR-IDMAERFLGEMIERGVEPNVVT--YNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRV-------R   73 (302)
Q Consensus         4 ~li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-------~   73 (302)
                      .++..+...|+ .+.|..+|+++...  .|....  ...++..+...+        ..+ -+|.+++.+..+       .
T Consensus       253 ~Ll~~~~~t~~~~~~a~~~le~L~~~--~p~~~~~~~~~~i~~~~~~~--------~~E-v~av~ll~~~l~~~~~~~~~  321 (754)
T 4gns_B          253 SLKSFIAITPSLVDFTIDYLKGLTKK--DPIHDIYYKTAMITILDHIE--------TKE-LDMITILNETLDPLLSLLND  321 (754)
T ss_dssp             HHHHHHHTCGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHTTCG--------GGH-HHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcccccHHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHhh--------hhh-HHHHHHHHHHHHHhhhhhhh
Confidence            34555555666 58899999999886  343332  223333322211        112 223333333321       1


Q ss_pred             CCCCCH----------HHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 022131           74 GIEPDV----------TSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEM  140 (302)
Q Consensus        74 ~~~~~~----------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  140 (302)
                      -...+.          ...+.-...+...|+++.|+++-++..... +.+-.+|..|..+|...|+++.|+-.++.+
T Consensus       322 l~~~~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          322 LPPRDADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             hcccccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            111121          122223445667899999999999998874 346779999999999999999999999876

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.88  E-value=0.75  Score=37.10  Aligned_cols=70  Identities=16%  Similarity=0.199  Sum_probs=43.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHh-----CCCCCCCHHHH
Q 022131          117 YSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKE-----DGLCVPNMHSY  188 (302)
Q Consensus       117 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  188 (302)
                      ...++..+...|+++++...++.+.... +.+...+..+|.++...|+..+|++.|+.+.+     .|. .|+..+-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~-~P~~~l~  248 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGI-DPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSC-CCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCC-CCCHHHH
Confidence            4455666666777777776666666543 24666777777777777777777777666533     354 6665543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.23  E-value=3.1  Score=37.68  Aligned_cols=257  Identities=7%  Similarity=-0.022  Sum_probs=122.8

Q ss_pred             HHhcCCcchHHHHHHHHHhCCCcccHHHH--HHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCC-------CCCH
Q 022131            9 WCKINRIDMAERFLGEMIERGVEPNVVTY--NVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGI-------EPDV   79 (302)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~   79 (302)
                      ....|+.++++.+++.....+-..+..+-  ..+.-+....|          ...++..++.......-       .+..
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag----------~~~~~~~lL~~~L~~~~~~~~~~~~~~i  453 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAG----------FGRDTTDYLKNIIVENSGTSGDEDVDVL  453 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTT----------TTHHHHHHHHHHHHHHSSCCSCHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCC----------CcHHHHHHHHHHHcCccccccccccHHH
Confidence            45567778887777665542101122222  22222233322          11246666665554311       0112


Q ss_pred             HHHHHHHHHHHhcCC-chhHHHHHHHHHhcCCCcCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHH--H
Q 022131           80 TSFSIVLHVYSRAHQ-PQLSLDKLNFMKEKGICPTV--ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYN--C  154 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~  154 (302)
                      ..-..+.-+.+-.|. -+++...+..+....- +..  ..-.++...+.-.|+.+....++..+.+..   +.....  .
T Consensus       454 r~gAaLGLGla~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aa  529 (963)
T 4ady_A          454 LHGASLGIGLAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLA  529 (963)
T ss_dssp             HHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHH
Confidence            222233333332332 2455666665554321 111  111233344556777777777777766541   222222  3


Q ss_pred             HHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 022131          155 FFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYN--ILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE  232 (302)
Q Consensus       155 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  232 (302)
                      +.-++...|+.+.+..+.+.+....  .|....-.  .+.-+|+..|+.....++++.+.+. ...++.....+.-++..
T Consensus       530 lgLGll~~g~~e~~~~li~~L~~~~--dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~  606 (963)
T 4ady_A          530 VGLALINYGRQELADDLITKMLASD--ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVL  606 (963)
T ss_dssp             HHHHHHTTTCGGGGHHHHHHHHHCS--CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHT
T ss_pred             HHHHhhhCCChHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhc
Confidence            3334457788888888888887653  33333222  3334566778877777788877764 12223322223333344


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchH-HHHHHHHHhccc
Q 022131          233 KQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDML-RTWRRLKKKLDE  283 (302)
Q Consensus       233 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~  283 (302)
                      .|+.+.+.+++..+.+.+ .|...--..+.-+....|.. .++...+..+..
T Consensus       607 ~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          607 LRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             SSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            566555566665544432 33333333333333333332 455556655543

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.77  E-value=0.72  Score=28.77  Aligned_cols=30  Identities=20%  Similarity=0.182  Sum_probs=12.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          183 PNMHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      |++....+.+++|-+.+++..|.++++.++
T Consensus        43 P~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           43 PEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444444444444444444444333

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.28  E-value=0.89  Score=28.35  Aligned_cols=45  Identities=9%  Similarity=0.092  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           98 SLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        98 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      ..+-++.+....+-|++.+..+.+++|.|.+++..|.++|+-++.
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           29 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            334444444444555555555555555555555555555555543

>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=92.80  E-value=1.4  Score=29.19  Aligned_cols=46  Identities=9%  Similarity=0.037  Sum_probs=20.3

Q ss_pred             hHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           97 LSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        97 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      +++.+++.+.+.+..-....+-.+.-++.+.|++++|.+..+.+.+
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3444444444433211223333444445555555555555555544

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=92.56  E-value=1.5  Score=29.04  Aligned_cols=32  Identities=22%  Similarity=0.207  Sum_probs=14.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      .|++......+.+|-+.+++..|.++++.++.
T Consensus        85 VPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~  116 (152)
T 2y69_E           85 VPEPKIIDAALRACRRLNDFASAVRILEVVKD  116 (152)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34444444444444444444444444444443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.09  E-value=6.3  Score=36.93  Aligned_cols=148  Identities=7%  Similarity=-0.055  Sum_probs=99.4

Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----C---------------
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN----G---------------  144 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~---------------  144 (302)
                      .++..+...+..+.+.++....     +.+...--.+..++...|++++|...|++....    .               
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            3445555666666655544332     224444455677888999999999999765221    0               


Q ss_pred             ---CCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022131          145 ---VCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMFMALNRMDMVREIWNDVKGSGLG  217 (302)
Q Consensus       145 ---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (302)
                         ...-..-|..++..+.+.+.++.+.++-....+... +.+    ...|..+..++...|++++|...+-.+..... 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~-~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~-  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKE-TDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL-  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCC-SCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc-CCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH-
Confidence               001123477888889999999999988877766532 222    12578889999999999999999988876533 


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHH
Q 022131          218 PDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       218 ~~~~~~~~li~~~~~~g~~~~a  239 (302)
                       -......++...+..|+.+.-
T Consensus       970 -r~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCCHHHH
T ss_pred             -HHHHHHHHHHHHHhCCChhhh
Confidence             456677787777766655443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.91  E-value=7.1  Score=35.42  Aligned_cols=180  Identities=13%  Similarity=0.101  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHH--HHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHH--HHHHhccCCHHHHHHH
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFS--IVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSV--VKCLCSCGRIEDAEEL  136 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--l~~~~~~~~~~~a~~~  136 (302)
                      +++.+.+..+.... .+......  .|...+...|+.+....++..+.+..   +..+...+  .-++...|+.+.+..+
T Consensus       471 eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~l  546 (963)
T 4ady_A          471 IEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDL  546 (963)
T ss_dssp             HHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHH
T ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHH
Confidence            34555666655532 11111122  23344556777777777777776542   33333333  3344477899999999


Q ss_pred             HHHHHHCCCCCChhhH--HHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          137 LGEMVRNGVCPSAETY--NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       137 ~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ++.+.... .|....-  .++.-+|+..|+.....+++..+....  ..++.....+.-+....|+.+.+.++++.+.+.
T Consensus       547 i~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~--~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~  623 (963)
T 4ady_A          547 ITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS--NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKS  623 (963)
T ss_dssp             HHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS--CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGC
T ss_pred             HHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC--cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhc
Confidence            99888641 1222222  233446778889888888999988763  334443333334455567777778887766665


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHH
Q 022131          215 GLGPDLDSYTMLIHGLCEKQKW-KEACQYFVEMIE  248 (302)
Q Consensus       215 ~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~  248 (302)
                      + .|.+..-..+.-+....|.. .++++++..+..
T Consensus       624 ~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          624 H-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             S-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             C-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            3 34444444444444545543 677888888764

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.64  E-value=2  Score=28.44  Aligned_cols=72  Identities=11%  Similarity=0.065  Sum_probs=41.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCch
Q 022131          182 VPNMHSYNILIGMFMALNRM---DMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQK  255 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  255 (302)
                      .|+..+--....++.+..+.   ..++.+++.+.+.+..-....+-.+.-++.+.|++++|.++.+.+.+  +.|+-
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCC
Confidence            46666655555566655443   35566666665543111234455566666777777777777777765  34543

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=91.53  E-value=2  Score=28.41  Aligned_cols=49  Identities=12%  Similarity=0.248  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhC
Q 022131          130 IEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .-+..+-++.+...++.|++....+.+++|.+.+++..|.++++-++..
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K  117 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK  117 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3344444445544555555555555555555555555555555555544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.19  E-value=0.032  Score=45.86  Aligned_cols=213  Identities=11%  Similarity=0.058  Sum_probs=130.8

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |.-+|.+..+.|++++-+..+....+..-.|  ..=+.|+-+|++.+++.+.+.+.                 -.||..-
T Consensus        86 y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk~~rL~elEefl-----------------~~~N~A~  146 (624)
T 3lvg_A           86 YMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAKTNRLAELEEFI-----------------NGPNNAH  146 (624)
T ss_dssp             SSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHTSCSSSTTTSTT-----------------SCCSSSC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHhhCcHHHHHHHH-----------------cCCCccc
Confidence            5567778888888888888886665553333  33457888888877765543330                 1234444


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhc--------------------CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEK--------------------GICPTVATYSSVVKCLCSCGRIEDAEELLGEMV  141 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  141 (302)
                      ...+..-|...|.++.|.-+|..+..-                    .-.-+..||..+-.+|...+.+.-|.-.--.+.
T Consensus       147 iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniI  226 (624)
T 3lvg_A          147 IQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIV  226 (624)
T ss_dssp             THHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhc
Confidence            444555555555555555444433111                    012256678888888888887776655544444


Q ss_pred             HCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC--
Q 022131          142 RNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS-GLGP--  218 (302)
Q Consensus       142 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--  218 (302)
                      -.     +.....++..|-..|.+++.+.+++.-....  ......|+-|.-.|++- ++++..+.++..-.+ +++-  
T Consensus       227 vh-----adeL~elv~~YE~~G~f~ELIsLlEaglglE--rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKvi  298 (624)
T 3lvg_A          227 VH-----ADELEELINYYQDRGYFEELITMLEAALGLE--RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVL  298 (624)
T ss_dssp             CC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTST--TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTH
T ss_pred             cc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC--chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHH
Confidence            22     2223345666788899999999888887544  67888899988888876 345544444432221 2221  


Q ss_pred             ----CHHHHHHHHHHHHHcCCHHHHHH
Q 022131          219 ----DLDSYTMLIHGLCEKQKWKEACQ  241 (302)
Q Consensus       219 ----~~~~~~~li~~~~~~g~~~~a~~  241 (302)
                          ....|.-++-.|.+-.+++.|..
T Consensus       299 racE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          299 RAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence                34567778888888888876654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.07  E-value=7.4e-05  Score=60.76  Aligned_cols=238  Identities=10%  Similarity=0.015  Sum_probs=133.5

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |+.|-.+..+.+++.+|++-|-+.      -|+..|..++.+..+          .+.+++-.+.+....+..-  +...
T Consensus        57 Ws~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~----------~~~~edLv~yL~MaRk~~k--e~~I  118 (624)
T 3lvg_A           57 WSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANT----------SGNWEELVKYLQMARKKAR--ESYV  118 (624)
T ss_dssp             SSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTT----------SSCCTTHHHHHHTTSTTCC--STTT
T ss_pred             HHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHh----------CCCHHHHHHHHHHHHHHhc--cccc
Confidence            555556666666666665544211      145556677777766          3444445555544443322  3333


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC------------------
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN------------------  143 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------------------  143 (302)
                      =+.|+-+|++.++..+..+++.       .|+..-...+.+-|...|.++.|.-+|..+...                  
T Consensus       119 DteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVd  191 (624)
T 3lvg_A          119 ETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVD  191 (624)
T ss_dssp             THHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTT
T ss_pred             HHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHH
Confidence            3567777777777655443322       133333445555555555555555554433211                  


Q ss_pred             --CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 022131          144 --GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLD  221 (302)
Q Consensus       144 --~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (302)
                        .-..++.||-.+-.+|...+++.-|.-.--.+.-..    +  -...++..|...|.+++.+.+++.-... -.....
T Consensus       192 aArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvha----d--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmG  264 (624)
T 3lvg_A          192 GARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHA----D--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMG  264 (624)
T ss_dssp             TTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCS----S--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHH
T ss_pred             HHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcccH----H--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHH
Confidence              012467788888888888888877655544444321    1  1234677788889999988888887754 346778


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHH
Q 022131          222 SYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLK  278 (302)
Q Consensus       222 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  278 (302)
                      .|+-|.-.|++- ++++..+.++..-.   +.   -.-.++++|.+...|.++.=++
T Consensus       265 mFTELaILYsKY-~PeKlmEHlklf~s---ri---NipKviracE~ahLW~ElvfLY  314 (624)
T 3lvg_A          265 MFTELAILYSKF-KPQKMREHLELFWS---RV---NIPKVLRAAEQAHLWAELVFLY  314 (624)
T ss_dssp             HHHHHHHHHHSS-CTTHHHHHHTTSSS---SS---CCTTTHHHHTTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhc-CHHHHHHHHHHHHH---hc---cHHHHHHHHHHHhhHHHHHHHH
Confidence            888888888775 45554444433211   11   1223455555555555444443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.93  E-value=5.9  Score=32.60  Aligned_cols=190  Identities=10%  Similarity=0.091  Sum_probs=118.5

Q ss_pred             cCCchhHHHHHHHHHhc-----CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH----cc
Q 022131           92 AHQPQLSLDKLNFMKEK-----GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR----GR  162 (302)
Q Consensus        92 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~  162 (302)
                      .|+++.|++.+-.+.+.     +...+......++..|...|+++...+.+..+.+.... .......+++.+.    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcC
Confidence            47888898887766543     34456777889999999999999998888777654222 2233344444332    23


Q ss_pred             CCchHH--HHHHHHHH--hCCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHH
Q 022131          163 KDANGA--MKLYRQMK--EDGLCVP---NMHSYNILIGMFMALNRMDMVREIWNDVKGS--GLGPD---LDSYTMLIHGL  230 (302)
Q Consensus       163 ~~~~~a--~~~~~~~~--~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~li~~~  230 (302)
                      ...+..  ..+...+.  ..|..-.   .......|...+...|++.+|.+++..+...  |..+.   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            332221  11111111  1111111   2234467788899999999999999997642  22111   35677788899


Q ss_pred             HHcCCHHHHHHHHHHHHHC----CCCCch--hhHHHHHHHHhhcchHHHHHHHHHhcc
Q 022131          231 CEKQKWKEACQYFVEMIEK----GLLPQK--VTFETLYRGLIQSDMLRTWRRLKKKLD  282 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~----~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~  282 (302)
                      ...+++.+|..++.++...    ...|+.  ..+...+..+...+++.+|.+.|.+.-
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            9999999999999987532    112221  334555666777788887777666543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.92  E-value=5.2  Score=32.70  Aligned_cols=100  Identities=9%  Similarity=-0.050  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhcC--CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC---CCCCChhh--H
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEKG--ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN---GVCPSAET--Y  152 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  152 (302)
                      .+...+...|.+.|+++.|.+.+.++....  ..--...+-..++.+...+++..+...+++....   +..|+...  .
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            356778899999999999999999997752  3334567888899999999999999999887643   22222211  1


Q ss_pred             HHHHHHHHccCCchHHHHHHHHHHhCC
Q 022131          153 NCFFKEYRGRKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       153 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  179 (302)
                      ..-...+...+++..|...|-+.....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t~  238 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLATF  238 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhccC
Confidence            111223456788999888888776554

>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=90.41  E-value=6  Score=31.88  Aligned_cols=166  Identities=11%  Similarity=0.066  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHhc-CCCc---CHHHHHHHHHHHhccC-CHHHHHHHHHHHHHCCCCCChhhH--
Q 022131           80 TSFSIVLHVYSRAHQPQLSLDKLNFMKEK-GICP---TVATYSSVVKCLCSCG-RIEDAEELLGEMVRNGVCPSAETY--  152 (302)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~--  152 (302)
                      .....|...|.+.|+.++..+++...... +.-+   .......++..+.... ..+.-.++..+..+..- -...+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            34566788888888888888887766432 1111   3344667777777643 34444444444443211 111233  


Q ss_pred             ----HHHHHHHHccCCchHHHHHHHHHHhCCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHH
Q 022131          153 ----NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN-----MHSYNILIGMFMALNRMDMVREIWNDVKGS--GLGPDLD  221 (302)
Q Consensus       153 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~  221 (302)
                          ..++..|...|++.+|..++..+.+.-. ..|     ..++..-++.|...++..++...+......  .+.+++.
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~-~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELK-KLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT-TSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh-ccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                3678888999999999888888876422 212     334555667788889999998888776542  2324443


Q ss_pred             HHHHH----HHHHH-HcCCHHHHHHHHHHHH
Q 022131          222 SYTML----IHGLC-EKQKWKEACQYFVEMI  247 (302)
Q Consensus       222 ~~~~l----i~~~~-~~g~~~~a~~~~~~~~  247 (302)
                      .-..+    ...+. ..++|..|...|-+..
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            32222    12234 6788888888776653

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.37  E-value=6.6  Score=32.29  Aligned_cols=191  Identities=7%  Similarity=0.073  Sum_probs=118.4

Q ss_pred             HHHHHHHHHHHHHHHhc-----CCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHH----hcc
Q 022131           57 EKTIRNAEKVFDEMRVR-----GIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCL----CSC  127 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~  127 (302)
                      .++++.|++.+-.+.+.     +...+......++..|...++++...+.+..+....... ......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            56677777776665532     244466778889999999999999888777665442221 22233344333    222


Q ss_pred             CCHHH--HHHHHHHHHHC--C-CCC---ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCC----HHHHHHHHHHH
Q 022131          128 GRIED--AEELLGEMVRN--G-VCP---SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPN----MHSYNILIGMF  195 (302)
Q Consensus       128 ~~~~~--a~~~~~~~~~~--~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~  195 (302)
                      ...+.  -..+.+.+...  | +-.   .......|...+...|++.+|.+++..+...-....+    ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            32222  11222111110  1 111   1234467788899999999999999998643210122    34566778889


Q ss_pred             HhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          196 MALNRMDMVREIWNDVKG----SGLGPD--LDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ...+++..|..++.++..    ....|+  ...+...+..+...+++.+|.+.|.++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999988643    212222  24566777778888999988888877653

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.98  E-value=6.6  Score=36.76  Aligned_cols=125  Identities=12%  Similarity=-0.029  Sum_probs=81.9

Q ss_pred             ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCC---------------------CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 022131          148 SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGL---------------------CVPNMHSYNILIGMFMALNRMDMVRE  206 (302)
Q Consensus       148 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (302)
                      ++...-.+..++...|++++|.+.|.+.-..-.                     ...-..-|..++..+.+.+.++.+.+
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~  920 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALE  920 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHH
Confidence            444444566778899999999999976521100                     01112346777888888888888888


Q ss_pred             HHHHHHhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHH
Q 022131          207 IWNDVKGSGLGPDL----DSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTW  274 (302)
Q Consensus       207 ~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  274 (302)
                      +-....+...+.+.    ..|..+.+++...|++++|...+-.+.+...+  ...+..|+..++..|..+..
T Consensus       921 fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          921 FSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHHHH
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChhhh
Confidence            87776654222221    25788889999999999999888877654332  35566677666666554443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.54  E-value=2.7  Score=29.01  Aligned_cols=30  Identities=7%  Similarity=-0.171  Sum_probs=20.6

Q ss_pred             HHHHHHHhhcchHHHHHHHHHhccccCCCc
Q 022131          259 ETLYRGLIQSDMLRTWRRLKKKLDEESITF  288 (302)
Q Consensus       259 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  288 (302)
                      -.+..++.+.++.++|..+++.+....-++
T Consensus       126 ykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~  155 (167)
T 3ffl_A          126 YKLAECYTVLKQDKDAIAILDGIPSRQRTP  155 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCGGGCCH
T ss_pred             HHHHHHHHHHCCHHHHHHHHhcCCchhcCH
Confidence            335667778888888888887765554444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.49  E-value=6.4  Score=30.83  Aligned_cols=99  Identities=20%  Similarity=0.087  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCch-hHHHHHHHH----HhcC--CCcCHHHHHHHHHHHhccCCHHHH
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQ-LSLDKLNFM----KEKG--ICPTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~~----~~~~--~~~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      +-+.-+.+-..+.++++|......++..+.....-+ .-.++++.+    .+.|  ..-|+.....+...|.+.+++.+|
T Consensus        76 DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~A  155 (336)
T 3lpz_A           76 DLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAA  155 (336)
T ss_dssp             HHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence            445455566666777888888888887776655322 112233332    2222  334677778888888888888888


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccC
Q 022131          134 EELLGEMVRNGVCPSAETYNCFFKEYRGRK  163 (302)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  163 (302)
                      +..|-    .|..++...+..++.-+...+
T Consensus       156 e~H~i----lg~~~s~~~~a~mL~ew~~~~  181 (336)
T 3lpz_A          156 EKHLV----LGTKESPEVLARMEYEWYKQD  181 (336)
T ss_dssp             HHHHT----TSCTTHHHHHHHHHHHHHHTS
T ss_pred             HHHHH----hcCCchHHHHHHHHHHHHHhc
Confidence            77662    233333456655554444333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.30  E-value=3.6  Score=27.62  Aligned_cols=67  Identities=7%  Similarity=-0.004  Sum_probs=33.1

Q ss_pred             CCHHHHHHHHHHHHhcCCc---hhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           77 PDVTSFSIVLHVYSRAHQP---QLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      |+..+--.+..++.++.+.   .+++.+++.+.+.+..-.....-.+.-++.+.|++++|.+..+.+.+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4444444444444444432   345555555555432222333334445566666666666666666654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.85  E-value=6.1  Score=32.29  Aligned_cols=98  Identities=9%  Similarity=-0.021  Sum_probs=69.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHC--CCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH--
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRN--GVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL--  191 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--  191 (302)
                      +...+...|.+.|+++.|.+.+.++...  +...-...+-.+++.+...+++..+...+.++...-...++....+.+  
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            5677899999999999999999999875  233345678888999999999999999998875432112332222221  


Q ss_pred             --HHHHHhcCCHHHHHHHHHHHHh
Q 022131          192 --IGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       192 --~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                        ...+...+++..|...|-+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence              1123356888888887777654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.83  E-value=6.9  Score=30.34  Aligned_cols=78  Identities=9%  Similarity=-0.021  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCch-hHHHHHHHH----HhcC--CCcCHHHHHHHHHHHhccCCHHHH
Q 022131           61 RNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQ-LSLDKLNFM----KEKG--ICPTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        61 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~~----~~~~--~~~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      +-+.-+.+-..+.+.+++......++..+......+ .-.++++.+    .+.|  ..-++.....+...|.+.|++.+|
T Consensus        74 DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A  153 (312)
T 2wpv_A           74 DLIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEA  153 (312)
T ss_dssp             HHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHH
Confidence            334445555566677777777777777765533221 123333333    2222  123666777777777777777777


Q ss_pred             HHHHH
Q 022131          134 EELLG  138 (302)
Q Consensus       134 ~~~~~  138 (302)
                      +..|-
T Consensus       154 ~~H~i  158 (312)
T 2wpv_A          154 ERYFM  158 (312)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66553

>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=86.60  E-value=7.1  Score=27.97  Aligned_cols=54  Identities=7%  Similarity=0.028  Sum_probs=33.6

Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP  218 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (302)
                      .....++|..|...++..--...|..-...+...|++.+|.++|+.-++.+..|
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            446666666666665545555556666666666666666666666666665555

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=85.47  E-value=5.4  Score=27.54  Aligned_cols=23  Identities=13%  Similarity=0.046  Sum_probs=11.3

Q ss_pred             HHHHHHHHccCCchHHHHHHHHH
Q 022131          153 NCFFKEYRGRKDANGAMKLYRQM  175 (302)
Q Consensus       153 ~~l~~~~~~~~~~~~a~~~~~~~  175 (302)
                      ..+.+++...+++..|...|++.
T Consensus        67 ~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           67 VYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHH
Confidence            34444445555555555555543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.20  E-value=6.6  Score=26.34  Aligned_cols=67  Identities=12%  Similarity=0.090  Sum_probs=35.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          182 VPNMHSYNILIGMFMALNRM---DMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      .|+..+--....++.+..+.   .++..+++.+...+..-.....-.+.-++.+.|++++|.++.+.+.+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            45555555555555555443   34555555555432211233334455566666666666666666665

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=83.48  E-value=16  Score=29.43  Aligned_cols=169  Identities=6%  Similarity=-0.093  Sum_probs=105.8

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhC-CCcc---cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCC-CC
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIER-GVEP---NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIE-PD   78 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~   78 (302)
                      .|...|.+.|+.++..+++.....- +.-|   .......+++.+.......     ...++-..+.++......-. ..
T Consensus        24 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~-----~~~~~~~~~~~~~a~~~~r~flr   98 (394)
T 3txn_A           24 QQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGT-----GIEVQLCKDCIEWAKQEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCH-----HHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677899999999999998876543 2122   3344667777776642211     33445555555555443100 00


Q ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCC-----cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC--CCCCChhh
Q 022131           79 VTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGIC-----PTVATYSSVVKCLCSCGRIEDAEELLGEMVRN--GVCPSAET  151 (302)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  151 (302)
                      ...=..++..|...|++.+|.+++..+.+.--.     .-...+..-+..|...+++.++...+......  .+.+++..
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence            011236788999999999999999988764111     12345666778888999999999999887643  22233332


Q ss_pred             HHHH----HHHHH-ccCCchHHHHHHHHHHh
Q 022131          152 YNCF----FKEYR-GRKDANGAMKLYRQMKE  177 (302)
Q Consensus       152 ~~~l----~~~~~-~~~~~~~a~~~~~~~~~  177 (302)
                      ...+    ...+. ..+++..|...|-+..+
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~  209 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAFE  209 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHHh
Confidence            2211    22345 78999999888877653

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=81.95  E-value=14  Score=27.81  Aligned_cols=114  Identities=11%  Similarity=0.037  Sum_probs=77.9

Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHH
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD----LDSYTMLIHGLCE  232 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~  232 (302)
                      ....+.|+.++++.....-.+..  +-|...-..+++.+|-.|+++.|.+-++...+.  .|+    ...|..+|.+=  
T Consensus         5 ~~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            5 KNALSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAA--   78 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHH--
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhhHHHHHHHHHHHHH--
Confidence            45678899999999988888886  788888899999999999999999998888774  333    33444444431  


Q ss_pred             cCCHHHHHHHHHHHHHCCCCC-----chhhHHHHHHHHh--hcchHHHHHHHHHhcccc
Q 022131          233 KQKWKEACQYFVEMIEKGLLP-----QKVTFETLYRGLI--QSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       233 ~g~~~~a~~~~~~~~~~~~~p-----~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~  284 (302)
                              ..=.+...-+-.|     ...-...++.+..  ..|+.++|..+..+..+.
T Consensus        79 --------~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           79 --------QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             --------HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                    1111222222222     2234455666555  568999999998887554

>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=80.73  E-value=13  Score=26.58  Aligned_cols=56  Identities=23%  Similarity=0.199  Sum_probs=39.9

Q ss_pred             CCchhHHHHHHHHHhcCCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC
Q 022131           93 HQPQLSLDKLNFMKEKGICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS  148 (302)
Q Consensus        93 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  148 (302)
                      +....+..+|..|...|+-. -...|......+...|++.+|..+|+.-++.+-.|-
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            33567788888887775432 355577777777888888888888888887766553

---

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	302
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.84
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.83
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.69
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.52
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.5
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.42
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.4
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.37
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.3
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.29
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.11
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.07
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.07
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.87
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.82
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.76
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.75
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.74
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.72
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.72
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.65
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.59
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.57
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.55
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.55
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.51
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.36
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.35
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.31
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.29
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.28
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.19
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.19
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.17
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.15
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.13
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.11
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.1
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.1
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.07
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.07
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.02
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.96
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.9
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.87
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.82
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.52
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.4
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.26
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.25
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.07
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.94
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.22
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.53
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.36
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.91
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.85
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.39
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	80.82

>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=99.84  E-value=1.6e-17  Score=132.97  Aligned_cols=266  Identities=14%  Similarity=0.039  Sum_probs=214.0

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCC------
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGI------   75 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~------   75 (302)
                      +..+...+.+.|++++|++.|++..+.. +-+..+|..+...+.+          .|++++|+..+........      
T Consensus        36 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~~~~~~~~  104 (388)
T d1w3ba_          36 LLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKE----------RGQLQEAIEHYRHALRLKPDFIDGY  104 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhh----------hcccccccccccccccccccccccc
Confidence            4456677888888888888888887653 3356677778888887          5555666655555443211      


Q ss_pred             -------------------------------------------------------------CCCHHHHHHHHHHHHhcCC
Q 022131           76 -------------------------------------------------------------EPDVTSFSIVLHVYSRAHQ   94 (302)
Q Consensus        76 -------------------------------------------------------------~~~~~~~~~ll~~~~~~~~   94 (302)
                                                                                   +.+...+..+...+...|+
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  184 (388)
T d1w3ba_         105 INLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGE  184 (388)
T ss_dssp             HHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCc
Confidence                                                                         1134456666777888899


Q ss_pred             chhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHH
Q 022131           95 PQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQ  174 (302)
Q Consensus        95 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  174 (302)
                      ++.|...+++..+... -+..++..+...+...|++++|...+++....+. .+...+..+...+...|++++|...+++
T Consensus       185 ~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  262 (388)
T d1w3ba_         185 IWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRR  262 (388)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999887753 3677889999999999999999999999888654 5677888889999999999999999999


Q ss_pred             HHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-
Q 022131          175 MKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-  253 (302)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-  253 (302)
                      ..+..  +.+..++..+...+...|++++|.+.++..... .+.+...+..+...+...|++++|+..+++..+.  .| 
T Consensus       263 al~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~  337 (388)
T d1w3ba_         263 AIELQ--PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPE  337 (388)
T ss_dssp             HHHTC--SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTT
T ss_pred             HHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCC
Confidence            98875  667888999999999999999999999998876 4567888899999999999999999999998764  45 


Q ss_pred             chhhHHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          254 QKVTFETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       254 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +..++..+..++...|++++|...+++..+..
T Consensus       338 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         338 FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            45678888999999999999999999987654

>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=99.83  E-value=3.8e-17  Score=130.79  Aligned_cols=264  Identities=13%  Similarity=0.025  Sum_probs=221.3

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +...+.+.|++++|++.++++.+.. |-+...+..+...+.+          .|++++|+..|++..+.. +-+..++..
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~----------~~~~~~A~~~~~~al~~~-p~~~~a~~~   72 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQ----------CRRLDRSAHFSTLAIKQN-PLLAEAYSN   72 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------cCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            3456788999999999999998762 3357788888888888          888999999999998874 336789999


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCC-----------------------------------------------------
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGIC-----------------------------------------------------  111 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~-----------------------------------------------------  111 (302)
                      +..++.+.|++++|...+....+....                                                     
T Consensus        73 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (388)
T d1w3ba_          73 LGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLE  152 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHH
T ss_pred             HHHHhhhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhh
Confidence            999999999999999998877654221                                                     


Q ss_pred             --------------cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHh
Q 022131          112 --------------PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKE  177 (302)
Q Consensus       112 --------------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  177 (302)
                                    .+...+..+...+...|++++|...+++..+... -+...+..+...+...|++++|...+.....
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  231 (388)
T d1w3ba_         153 EAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             hhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHH
Confidence                          1234555666777788999999999999887643 4677889999999999999999999999988


Q ss_pred             CCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhh
Q 022131          178 DGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVT  257 (302)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  257 (302)
                      ..  +.+...+..+...+.+.|++++|...+++..+.. +-+..++..+..++...|++++|.+.++..... .+.+...
T Consensus       232 ~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~  307 (388)
T d1w3ba_         232 LS--PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADS  307 (388)
T ss_dssp             HC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHH
T ss_pred             Hh--hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchh
Confidence            76  6778888999999999999999999999998862 346788999999999999999999999998775 3556778


Q ss_pred             HHHHHHHHhhcchHHHHHHHHHhccccC
Q 022131          258 FETLYRGLIQSDMLRTWRRLKKKLDEES  285 (302)
Q Consensus       258 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~  285 (302)
                      +..+...+...|++++|...+++..+..
T Consensus       308 ~~~l~~~~~~~~~~~~A~~~~~~al~~~  335 (388)
T d1w3ba_         308 LNNLANIKREQGNIEEAVRLYRKALEVF  335 (388)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHTTSC
T ss_pred             hhHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            8888999999999999999999977654

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=3.9e-15  Score=116.42  Aligned_cols=228  Identities=9%  Similarity=-0.011  Sum_probs=182.7

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIV   85 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   85 (302)
                      ...+.+.|++++|+..|+.+.+.. |-+..+|..+..++..          .|++++|...|++..+.. +-+...+..+
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~----------~~~~~~A~~~~~~al~~~-p~~~~~~~~l   93 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAE----------NEQELLAISALRRCLELK-PDNQTALMAL   93 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------cCChHHHHHHHHhhhccc-cccccccccc
Confidence            345789999999999999999873 3357788999889998          888999999999998874 3367888999


Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCc--------------CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCChh
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICP--------------TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV-CPSAE  150 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~  150 (302)
                      ...+...|++++|.+.++.........              +.......+..+...+...+|...+++..+... .++..
T Consensus        94 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~  173 (323)
T d1fcha_          94 AVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPD  173 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHH
T ss_pred             cccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccc
Confidence            999999999999999999987653210              000111122233445667888888888776532 24567


Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022131          151 TYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGL  230 (302)
Q Consensus       151 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  230 (302)
                      ++..+...+...|++++|...+++.....  +.+...|..+..++...|++++|.+.+++..+.. +-+..+|..+..+|
T Consensus       174 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  250 (323)
T d1fcha_         174 VQCGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISC  250 (323)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHH
Confidence            78888899999999999999999998875  5678889999999999999999999999988752 33677899999999


Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 022131          231 CEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~  248 (302)
                      .+.|++++|+..|++.++
T Consensus       251 ~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         251 INLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999999876

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.1e-14  Score=113.84  Aligned_cols=222  Identities=12%  Similarity=-0.000  Sum_probs=178.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEEL  136 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  136 (302)
                      .|++++|+..|+++.+.. +-+..+|..+..++...|++++|...+.+..+... -+...+..+...|...|++++|.+.
T Consensus        32 ~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~  109 (323)
T d1fcha_          32 EGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEI  109 (323)
T ss_dssp             TTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-ccccccccccccccccccccccccc
Confidence            788999999999999875 33688999999999999999999999999988753 3678899999999999999999999


Q ss_pred             HHHHHHCCCCCC--------------hhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHH
Q 022131          137 LGEMVRNGVCPS--------------AETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMD  202 (302)
Q Consensus       137 ~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (302)
                      +++.........              .......+..+...+...++...+.+..+.....++...+..+...+...|+++
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~  189 (323)
T d1fcha_         110 LRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYD  189 (323)
T ss_dssp             HHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHH
T ss_pred             hhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHh
Confidence            999887532100              001111222334445667788888887765422456778888999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-chhhHHHHHHHHhhcchHHHHHHHHHhc
Q 022131          203 MVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-QKVTFETLYRGLIQSDMLRTWRRLKKKL  281 (302)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~  281 (302)
                      +|...+++..... +-+...|..+..++...|++++|.+.|++..+.  .| +..++..+..+|.+.|++++|.+.+++.
T Consensus       190 ~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  266 (323)
T d1fcha_         190 KAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEA  266 (323)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999988752 346788999999999999999999999999874  44 4567888999999999999999999886


Q ss_pred             cc
Q 022131          282 DE  283 (302)
Q Consensus       282 ~~  283 (302)
                      .+
T Consensus       267 l~  268 (323)
T d1fcha_         267 LN  268 (323)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=99.52  E-value=2.2e-11  Score=94.13  Aligned_cols=231  Identities=9%  Similarity=-0.005  Sum_probs=167.7

Q ss_pred             cchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCC----cchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 022131           15 IDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLH----PSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYS   90 (302)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   90 (302)
                      .+++..+|+++... .+-+...|...+..+.+.+...    ....-.+..+++..+|++..+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            45677788888765 3445566666655443311110    000114566888999999887644556677888888888


Q ss_pred             hcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHccCCchHHH
Q 022131           91 RAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKE-YRGRKDANGAM  169 (302)
Q Consensus        91 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  169 (302)
                      +.|+++.|..+|+.+.+........+|...+..+.+.|+.+.|..+|+++.+.+. .+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHH
Confidence            9999999999999988765443455788889999999999999999999887754 234444443332 44568889999


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 022131          170 KLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSG-LGP--DLDSYTMLIHGLCEKQKWKEACQYFVEM  246 (302)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~  246 (302)
                      .+|+.+.+..  +.+...|...++...+.|+.+.|+.+|++..... ..|  ....|...+..-...|+.+.+..+++++
T Consensus       190 ~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         190 KIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999998874  6678888899999999999999999999987753 233  2457888888778889999999999888


Q ss_pred             HHC
Q 022131          247 IEK  249 (302)
Q Consensus       247 ~~~  249 (302)
                      .+.
T Consensus       268 ~~~  270 (308)
T d2onda1         268 FTA  270 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            663

>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=99.50  E-value=1.8e-11  Score=94.57  Aligned_cols=223  Identities=9%  Similarity=0.044  Sum_probs=172.3

Q ss_pred             HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh--------------cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHH
Q 022131           58 KTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR--------------AHQPQLSLDKLNFMKEKGICPTVATYSSVVKC  123 (302)
Q Consensus        58 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  123 (302)
                      ...+.+..+|+++...- +-+...|...+..+..              .+..++|..+|++..+...+.+...|...+..
T Consensus        30 ~~~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~  108 (308)
T d2onda1          30 LITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            34556777788777652 3355666655554332              23347788899998876556677788999999


Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH-HHhcCCHH
Q 022131          124 LCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM-FMALNRMD  202 (302)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~  202 (302)
                      ..+.|+++.|..+|+++.+.........|...+..+.+.|+.+.|.++|..+.+.+  +.+...|...... +...|+.+
T Consensus       109 ~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~--~~~~~~~~~~a~~e~~~~~~~~  186 (308)
T d2onda1         109 EESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHH
T ss_pred             HHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhccCHH
Confidence            99999999999999999986543345578999999999999999999999999886  4455555554443 34568999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCc--hhhHHHHHHHHhhcchHHHHHHHHH
Q 022131          203 MVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKG-LLPQ--KVTFETLYRGLIQSDMLRTWRRLKK  279 (302)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~  279 (302)
                      .|..+|+.+.+. .+.+...|...+..+...|+++.|..+|++..+.. ..|+  ...|...+.--...|+.+.+..+.+
T Consensus       187 ~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~  265 (308)
T d2onda1         187 VAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999886 45578899999999999999999999999998763 4443  2467778877788899999999998


Q ss_pred             hcccc
Q 022131          280 KLDEE  284 (302)
Q Consensus       280 ~~~~~  284 (302)
                      ++.+.
T Consensus       266 r~~~~  270 (308)
T d2onda1         266 RRFTA  270 (308)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87553

>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=99.42  E-value=3e-10  Score=87.80  Aligned_cols=213  Identities=8%  Similarity=0.043  Sum_probs=140.7

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHH-HHHHHHHHHHHHHhcCCCCCHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEK-TIRNAEKVFDEMRVRGIEPDVT   80 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~   80 (302)
                      |+.+-..+.+.+.+++|+++++++++.+ |-+...|+....++..          .+ ++++|+..++...... +-+..
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~----------l~~~~~eal~~~~~al~~~-p~~~~  113 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKS----------LQKDLHEEMNYITAIIEEQ-PKNYQ  113 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------TTCCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHH----------hCcCHHHHHHHHHHHHHHH-Hhhhh
Confidence            3445555667777888888888887762 3345566666666655          33 4677888888877764 23677


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      +|+.+...+.+.|++++|+..++++.+.... +...|..+...+.+.|++++|+..++++++..+ .+...|+.+...+.
T Consensus       114 a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~  191 (315)
T d2h6fa1         114 VWHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVIS  191 (315)
T ss_dssp             HHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHH
Confidence            7888888888888888888888888776533 677788888888888888888888888877643 35666766666555


Q ss_pred             ccCC------chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHH
Q 022131          161 GRKD------ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG-PDLDSYTMLIHGLC  231 (302)
Q Consensus       161 ~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~  231 (302)
                      ..+.      .++++..+....+..  +.+...|..+...+... ..+++.+.++...+.... .+...+..++..|.
T Consensus       192 ~~~~~~~~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         192 NTTGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HTTCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             HccccchhhhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence            5544      356777777776664  55666676665554433 346666666666553222 23445555555553

>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=99.40  E-value=1e-10  Score=90.49  Aligned_cols=231  Identities=8%  Similarity=0.002  Sum_probs=176.6

Q ss_pred             HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CchhHHHHHHHHHhcCCCcC
Q 022131           35 VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH-QPQLSLDKLNFMKEKGICPT  113 (302)
Q Consensus        35 ~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~  113 (302)
                      ..++.+-..+.+          .+.+++|+++++.+.+.+ +-+...|+....++...| ++++|+..++...+.... +
T Consensus        44 ~a~~~~~~~~~~----------~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~  111 (315)
T d2h6fa1          44 DVYDYFRAVLQR----------DERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-N  111 (315)
T ss_dssp             HHHHHHHHHHHH----------TCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-C
T ss_pred             HHHHHHHHHHHh----------CCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-h
Confidence            455555555666          566799999999999985 336778999998888876 589999999999888644 7


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHH
Q 022131          114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIG  193 (302)
Q Consensus       114 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  193 (302)
                      ..+|..+...+.+.|++++|+..++++.+... .+...|..+...+...|++++|+..++.+.+.+  +.+...|+.+..
T Consensus       112 ~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~  188 (315)
T d2h6fa1         112 YQVWHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYF  188 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             hhHHHHHhHHHHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHH
Confidence            88999999999999999999999999998754 478999999999999999999999999999986  678888888877


Q ss_pred             HHHhcCC------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CchhhHHHHHHHHh
Q 022131          194 MFMALNR------MDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLL-PQKVTFETLYRGLI  266 (302)
Q Consensus       194 ~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~  266 (302)
                      .+.+.+.      +++|.+.+.+..+.. +.+...|+.+...+.. ...+++.+.++...+.... .+...+..+...+.
T Consensus       189 ~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         189 VISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             HHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence            7766655      578888888888752 3467777777665544 4467788888877664222 23445556666664


Q ss_pred             hc---------chHHHHHHHHHhcc
Q 022131          267 QS---------DMLRTWRRLKKKLD  282 (302)
Q Consensus       267 ~~---------g~~~~a~~~~~~~~  282 (302)
                      ..         ..+++|..+++.+.
T Consensus       267 ~~~~~~~~~~~~~~~ka~~l~~~l~  291 (315)
T d2h6fa1         267 DMLENQCDNKEDILNKALELCEILA  291 (315)
T ss_dssp             HHHHTTCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHHH
Confidence            32         34556666665543

>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=99.37  E-value=7.5e-10  Score=86.64  Aligned_cols=268  Identities=9%  Similarity=-0.037  Sum_probs=190.6

Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCccc----HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcC----CC-
Q 022131            6 IYGWCKINRIDMAERFLGEMIERGVEPN----VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRG----IE-   76 (302)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~----~~-   76 (302)
                      ...+...|++++|++++++..+.....+    ...+..+...+..          .|++++|+..|++..+..    .. 
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~----------~g~~~~A~~~~~~a~~~~~~~~~~~   88 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHC----------KGELTRSLALMQQTEQMARQHDVWH   88 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHH----------HTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHHHHhhcchH
Confidence            3456789999999999999987621111    2356666677777          888899999999876532    11 


Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----CCC--c-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC----
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----GIC--P-TVATYSSVVKCLCSCGRIEDAEELLGEMVRNGV----  145 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----  145 (302)
                      .....+..+...+...|++..+...+......    +..  + ....+..+...+...|+++.+...++.......    
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~  168 (366)
T d1hz4a_          89 YALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQP  168 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhh
Confidence            11345667778888999999999988876542    111  1 223556677888999999999999998876422    


Q ss_pred             CCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--
Q 022131          146 CPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC-VP----NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGP--  218 (302)
Q Consensus       146 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--  218 (302)
                      ......+......+...++...+...+.+....... ..    ....+..+...+...|+++.|...++.........  
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  248 (366)
T d1hz4a_         169 QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNH  248 (366)
T ss_dssp             GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCG
T ss_pred             hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccch
Confidence            223445566667788889999988888776543110 11    12345566777888999999999999877643222  


Q ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhccc
Q 022131          219 -DLDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKLDE  283 (302)
Q Consensus       219 -~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  283 (302)
                       ....+..+..++...|++++|...+++....    +..|+ ..++..+..++...|++++|.+.+++..+
T Consensus       249 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         249 FLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             2345666788999999999999999987642    44443 35677788899999999999999887544

>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=99.30  E-value=2.9e-11  Score=94.61  Aligned_cols=259  Identities=8%  Similarity=-0.050  Sum_probs=172.8

Q ss_pred             CCcchHHHHHHHHHhCCCcccH-HHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 022131           13 NRIDMAERFLGEMIERGVEPNV-VTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR   91 (302)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   91 (302)
                      +..++|+++++...+.  .|+. ..|+..-..+...+.........+.+++|+..++...... +.+...|..+..++..
T Consensus        43 ~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHH
Confidence            3358999999999876  3444 4565554444443333333333788999999999998874 3377788888777777


Q ss_pred             cCC--chhHHHHHHHHHhcCCCcCHHHHH-HHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHH
Q 022131           92 AHQ--PQLSLDKLNFMKEKGICPTVATYS-SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGA  168 (302)
Q Consensus        92 ~~~--~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  168 (302)
                      .++  +++|...++.+.+.... +...+. .....+...+..++|+..++.+.+..+ -+...|..+..++...|++++|
T Consensus       120 ~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         120 LPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCS
T ss_pred             hccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHH
Confidence            665  78999999999887533 455544 455777788999999999999988754 4788899899999999988776


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          169 MKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ...+....+..   |+.   ......+...+..+++...+...... .+++...+..+...+...|+.++|...+.+..+
T Consensus       198 ~~~~~~~~~~~---~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         198 GPQGRLPENVL---LKE---LELVQNAFFTDPNDQSAWFYHRWLLG-RAEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSCCSSCHHHH---HHH---HHHHHHHHHHCSSCSHHHHHHHHHHS-CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhHHhH---HHH---HHHHHHHHHhcchhHHHHHHHHHHHh-CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            55544433321   111   12223344555666666666666554 234444555566666667777777777776654


Q ss_pred             CCCCCchhhHHHHHHHHhhcchHHHHHHHHHhcccc
Q 022131          249 KGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       249 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  284 (302)
                      .. +-+..++..+..++...|+.++|.+.+++..+.
T Consensus       271 ~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         271 EN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             TC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             hC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            31 123455666667777777777777777776554

>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=99.29  E-value=4.6e-09  Score=78.55  Aligned_cols=221  Identities=8%  Similarity=-0.094  Sum_probs=153.3

Q ss_pred             HHHHHHHHHHHHHHHhcCC-CC--CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGI-EP--DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDA  133 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  133 (302)
                      ..+.+.++.-+++...... .+  ...++..+..+|.+.|++++|...|++..+... -+..+|..+..+|.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHh
Confidence            4455677777777776432 11  234777888999999999999999999998763 3788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022131          134 EELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      +..|+++.+... -+..++..+..++...|++++|...++...+..  +.+......+...+.+.+..+.+..+......
T Consensus        91 ~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          91 YEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            999999998754 356788889999999999999999999998875  45666555555566666766666666666555


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCC----HHHHHHHHHHHHHCCCCCc-hhhHHHHHHHHhhcchHHHHHHHHHhccccCC
Q 022131          214 SGLGPDLDSYTMLIHGLCEKQK----WKEACQYFVEMIEKGLLPQ-KVTFETLYRGLIQSDMLRTWRRLKKKLDEESI  286 (302)
Q Consensus       214 ~~~~~~~~~~~~li~~~~~~g~----~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  286 (302)
                      ..  ++...++ ++..+.....    .+.+...+.....  ..|+ ..++..+...+...|++++|.+.+++......
T Consensus       168 ~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         168 SD--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             SC--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            32  2222222 2222222111    2222222222111  1222 24566778888999999999999998776543

>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=99.11  E-value=1.5e-08  Score=78.99  Aligned_cols=265  Identities=9%  Similarity=0.028  Sum_probs=178.3

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCC----Ccc-cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHh----
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERG----VEP-NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRV----   72 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~----   72 (302)
                      ++.+...+...|++++|+..|++.....    ..+ ....+..+...+..          .+++..+...+.+...    
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~a~~~~~~al~~~~~  123 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFA----------QGFLQTAWETQEKAFQLINE  123 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHhHh
Confidence            3456678889999999999999887541    111 12344445555656          4555666666655443    


Q ss_pred             cCCC--C-CHHHHHHHHHHHHhcCCchhHHHHHHHHHhcC----CCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-
Q 022131           73 RGIE--P-DVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKG----ICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNG-  144 (302)
Q Consensus        73 ~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-  144 (302)
                      .+..  + ....+..+...+...|+++.+...+.......    ......++......+...++..++...+.+..... 
T Consensus       124 ~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~  203 (366)
T d1hz4a_         124 QHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLG  203 (366)
T ss_dssp             TTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             cccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence            1111  1 22356667788899999999999998886642    22345566677778888999999998888765431 


Q ss_pred             -CCC----ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----
Q 022131          145 -VCP----SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLC--VPNMHSYNILIGMFMALNRMDMVREIWNDVKG----  213 (302)
Q Consensus       145 -~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----  213 (302)
                       ...    ....+..+...+...|+++++...+.........  ......+..+..++...|++++|...++....    
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  283 (366)
T d1hz4a_         204 NGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARS  283 (366)
T ss_dssp             TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh
Confidence             111    1234566677788999999999999887665321  12244566788899999999999999998764    


Q ss_pred             CCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC----chhhHHHHHHHHhhcchHHHHHH
Q 022131          214 SGLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEK----GLLP----QKVTFETLYRGLIQSDMLRTWRR  276 (302)
Q Consensus       214 ~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p----~~~~~~~l~~~~~~~g~~~~a~~  276 (302)
                      .+..|+ ...+..+..+|...|++++|.+.+++..+.    |...    ....+..++..+...+..+++.+
T Consensus       284 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         284 LRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            233333 456778889999999999999999987653    2211    12234455566666666655543

>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=99.11  E-value=1.6e-09  Score=81.15  Aligned_cols=222  Identities=8%  Similarity=-0.041  Sum_probs=154.1

Q ss_pred             CCcchHHHHHHHHHhCCC-cc--cHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 022131           13 NRIDMAERFLGEMIERGV-EP--NVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVY   89 (302)
Q Consensus        13 g~~~~a~~~~~~~~~~~~-~~--~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   89 (302)
                      .+.+.++.-+++...... .+  ...+|..+-.+|.+          .|++++|+..|++..+.. +-+..+|+.+..++
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~----------~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~   81 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDS----------LGLRALARNDFSQALAIR-PDMPEVFNYLGIYL   81 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHH----------CCCHHHHHHHHHHhhccC-CCCHHHHhhhchHH
Confidence            345667777778776521 11  23466667778888          888999999999999875 34788999999999


Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHH
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      .+.|++++|+..|+++.+.... +..++..+..++...|++++|...|+...+... .+......+...+...+..+...
T Consensus        82 ~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~  159 (259)
T d1xnfa_          82 TQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKE  159 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHH
T ss_pred             HHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHH
Confidence            9999999999999999987633 667888999999999999999999999988643 34444444555556666666666


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 022131          170 KLYRQMKEDGLCVPNMHSYNILIGMFMAL----NRMDMVREIWNDVKGSGLGP-DLDSYTMLIHGLCEKQKWKEACQYFV  244 (302)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~  244 (302)
                      .+.........   +...+. ++..+...    +..+.+...+......  .| ...+|..+...+...|++++|...|+
T Consensus       160 ~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~  233 (259)
T d1xnfa_         160 VLKQHFEKSDK---EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFK  233 (259)
T ss_dssp             HHHHHHHHSCC---CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhhccch---hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            66666665532   222222 22222222    2233333333322221  12 23567788999999999999999999


Q ss_pred             HHHHCCCCCch
Q 022131          245 EMIEKGLLPQK  255 (302)
Q Consensus       245 ~~~~~~~~p~~  255 (302)
                      +.+..  .|+.
T Consensus       234 ~al~~--~p~~  242 (259)
T d1xnfa_         234 LAVAN--NVHN  242 (259)
T ss_dssp             HHHTT--CCTT
T ss_pred             HHHHc--CCCC
Confidence            99874  5654

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=1.8e-08  Score=76.74  Aligned_cols=239  Identities=14%  Similarity=0.075  Sum_probs=156.6

Q ss_pred             hHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCch
Q 022131           17 MAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQ   96 (302)
Q Consensus        17 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   96 (302)
                      ++.+++.+..+.+ +|....+..+..  ..          ..++++|.++|.+.               ...|...++++
T Consensus         3 ~~~~~l~~aek~~-~~~~~~~~~~~~--~~----------~~~~~~Aa~~y~~a---------------a~~y~~~~~~~   54 (290)
T d1qqea_           3 DPVELLKRAEKKG-VPSSGFMKLFSG--SD----------SYKFEEAADLCVQA---------------ATIYRLRKELN   54 (290)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHHHHHSC--CS----------HHHHHHHHHHHHHH---------------HHHHHHTTCTH
T ss_pred             CHHHHHHHHHHhc-CcchhHHHHhcC--Cc----------cccHHHHHHHHHHH---------------HHHHHHCcCHH
Confidence            5667777766553 333322221110  11          56778888777664               45688899999


Q ss_pred             hHHHHHHHHHhc----CCCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CC-CCChhhHHHHHHHHHc-cCCc
Q 022131           97 LSLDKLNFMKEK----GICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRN----GV-CPSAETYNCFFKEYRG-RKDA  165 (302)
Q Consensus        97 ~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~-~~~~  165 (302)
                      +|.+.|.+..+.    +-++ ...+|..+..+|.+.|++++|...+++..+.    |. .....++..+...|.. .|++
T Consensus        55 ~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  134 (290)
T d1qqea_          55 LAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDY  134 (290)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHH
Confidence            999999888653    2112 2457888999999999999999999987653    11 1123455666666644 6999


Q ss_pred             hHHHHHHHHHHhC----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHHcC
Q 022131          166 NGAMKLYRQMKED----GLCVP-NMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDL------DSYTMLIHGLCEKQ  234 (302)
Q Consensus       166 ~~a~~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g  234 (302)
                      ++|...+.+..+.    +. ++ -..++..+...+...|++++|...++++.........      ..+...+.++...|
T Consensus       135 ~~A~~~~~~A~~l~~~~~~-~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  213 (290)
T d1qqea_         135 AKAIDCYELAGEWYAQDQS-VALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAAT  213 (290)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHhcCc-hhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhc
Confidence            9999999887542    21 11 2345778889999999999999999998775222111      23345556677889


Q ss_pred             CHHHHHHHHHHHHHCCCC-Cc---hhhHHHHHHHHhh--cchHHHHHHHHHhcccc
Q 022131          235 KWKEACQYFVEMIEKGLL-PQ---KVTFETLYRGLIQ--SDMLRTWRRLKKKLDEE  284 (302)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~  284 (302)
                      +++.|...+++..+.... ++   ......++.++..  .+.+++|...++++.+.
T Consensus       214 d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         214 DAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             CHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             cHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence            999999999988654211 12   2344556666655  34578888887765543

>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=99.07  E-value=1.7e-10  Score=90.16  Aligned_cols=236  Identities=10%  Similarity=-0.004  Sum_probs=173.2

Q ss_pred             hcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH-HHHHHH
Q 022131           11 KINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS-IVLHVY   89 (302)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~   89 (302)
                      ..|++++|+.+++...+.. +-+...|..+..++...+        .++++++...++.+.+.. +++...+. .....+
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~--------~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~  154 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP--------EPNWARELELCARFLEAD-ERNFHCWDYRRFVAA  154 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS--------SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhc--------cccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHH
Confidence            4456789999999988763 346667777777777643        335788999999998874 33555554 455777


Q ss_pred             HhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHH
Q 022131           90 SRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAM  169 (302)
Q Consensus        90 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  169 (302)
                      ...+.++.|+..++.+.+.+.. +...|..+..++.+.|++++|...++...+..  |+   .......+...+..+++.
T Consensus       155 ~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~  228 (334)
T d1dcea1         155 QAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSA  228 (334)
T ss_dssp             HTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHH
T ss_pred             HhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHH
Confidence            7889999999999999888643 78889999999999999988876665544321  11   122333455667777888


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          170 KLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ..+.......  +++...+..+...+...++.++|...+.+..... +.+...+..+..++...|++++|.+.++++.+ 
T Consensus       229 ~~~~~~l~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~-  304 (334)
T d1dcea1         229 WFYHRWLLGR--AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA-  304 (334)
T ss_dssp             HHHHHHHHSC--CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHhC--cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-
Confidence            8888887775  5666667777888888899999999999888752 23567778888999999999999999999988 


Q ss_pred             CCCCchh-hHHHHHHHHhh
Q 022131          250 GLLPQKV-TFETLYRGLIQ  267 (302)
Q Consensus       250 ~~~p~~~-~~~~l~~~~~~  267 (302)
                       +.|+.. -|..+...+.-
T Consensus       305 -ldP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         305 -VDPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             -HCGGGHHHHHHHHHHHHH
T ss_pred             -HCcccHHHHHHHHHHHhH
Confidence             467543 44545444443

>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=98.87  E-value=3.2e-07  Score=64.95  Aligned_cols=121  Identities=11%  Similarity=0.019  Sum_probs=70.5

Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHH
Q 022131          123 CLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMD  202 (302)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (302)
                      .+...|+++.|++.|+++    .+|+..+|..+..+|...|++++|.+.|++..+..  +.+...|..+..++.+.|+++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhccHH
Confidence            344555566665555543    12445555555555666666666666666655554  445555566666666666666


Q ss_pred             HHHHHHHHHHhCC------------C--CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          203 MVREIWNDVKGSG------------L--GP-DLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       203 ~a~~~~~~~~~~~------------~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      +|...|++.....            .  ++ ...++..+..++...|++++|.+.+....+.
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            6666665554320            0  00 1244556677788888888888888877664

>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=98.82  E-value=5.3e-07  Score=63.79  Aligned_cols=126  Identities=10%  Similarity=-0.072  Sum_probs=92.8

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDA  165 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  165 (302)
                      ...+...|+++.|++.|.++    .+|+..+|..+..+|...|++++|+..|++.++... .+...|..+..++...|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccH
Confidence            34466778888888877654    245677777888888888888888888888887654 4677788888888888888


Q ss_pred             hHHHHHHHHHHhCCCC-------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 022131          166 NGAMKLYRQMKEDGLC-------------VP-NMHSYNILIGMFMALNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       166 ~~a~~~~~~~~~~~~~-------------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (302)
                      ++|...|++.......             ++ ...++..+..++.+.|++++|.+.+........
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            8888888877653210             01 134566777888999999999999998887533

>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=98.82  E-value=1.6e-07  Score=71.31  Aligned_cols=191  Identities=10%  Similarity=0.019  Sum_probs=121.6

Q ss_pred             HHHHHHHHHHHHHHHhc-----CCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhc----C-CCcCHHHHHHHHHHHh-
Q 022131           57 EKTIRNAEKVFDEMRVR-----GIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEK----G-ICPTVATYSSVVKCLC-  125 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~-  125 (302)
                      .+++++|.+.|.+..+.     +...-..+|..+..+|.+.|++++|...++...+.    | ......++..+...|. 
T Consensus        50 ~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~  129 (290)
T d1qqea_          50 RKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILEN  129 (290)
T ss_dssp             TTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhh
Confidence            45555666666555431     12335888888888898999998888888876543    1 1112345666666664 


Q ss_pred             ccCCHHHHHHHHHHHHHC----CCCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCC----C-HHHHHHHHHHH
Q 022131          126 SCGRIEDAEELLGEMVRN----GVCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVP----N-MHSYNILIGMF  195 (302)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~-~~~~~~l~~~~  195 (302)
                      ..|++++|+..+++..+.    +.++ ...++..+...+...|++++|...++++.......+    + ...+...+..+
T Consensus       130 ~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  209 (290)
T d1qqea_         130 DLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQ  209 (290)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHH
Confidence            468899999888876542    2111 245577788888999999999999988877642111    1 12234455566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-CC---HHHHHHHHHHHHH--cCCHHHHHHHHHHHH
Q 022131          196 MALNRMDMVREIWNDVKGSGLG-PD---LDSYTMLIHGLCE--KQKWKEACQYFVEMI  247 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~li~~~~~--~g~~~~a~~~~~~~~  247 (302)
                      ...|+++.|...+++..+.... ++   ......++.++-.  .+.+++|+..|+++.
T Consensus       210 l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         210 LAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            7789999999999888764211 11   2344566666544  345888888887653

>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=98.76  E-value=4.1e-07  Score=58.70  Aligned_cols=89  Identities=11%  Similarity=-0.079  Sum_probs=41.8

Q ss_pred             HHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchH
Q 022131           88 VYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANG  167 (302)
Q Consensus        88 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  167 (302)
                      .+.+.|++++|+..|.+..+.. +.+...|..+..+|...|++++|+..+++..+.+. .+...|..+..++...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHccCHHH
Confidence            3444455555555555544443 22444444444455555555555555554444432 344444444444445555555


Q ss_pred             HHHHHHHHHhC
Q 022131          168 AMKLYRQMKED  178 (302)
Q Consensus       168 a~~~~~~~~~~  178 (302)
                      |+..|++..+.
T Consensus        90 A~~~~~~a~~~  100 (117)
T d1elwa_          90 AKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            55555444443

>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=98.75  E-value=2.5e-07  Score=59.79  Aligned_cols=88  Identities=11%  Similarity=0.003  Sum_probs=49.5

Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  237 (302)
                      .+...|++++|+..|.+..+..  +.+...|..+..++...|++++|...+....+.+ +.+...|..+..++...|+++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            3455555555555555555554  4455555555555556666666666665555542 335555555555566666666


Q ss_pred             HHHHHHHHHHH
Q 022131          238 EACQYFVEMIE  248 (302)
Q Consensus       238 ~a~~~~~~~~~  248 (302)
                      +|+..|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            66666665554

>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=98.74  E-value=1.3e-07  Score=67.45  Aligned_cols=99  Identities=12%  Similarity=0.031  Sum_probs=85.2

Q ss_pred             cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHH
Q 022131          112 PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNIL  191 (302)
Q Consensus       112 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  191 (302)
                      |+...+......+.+.|++++|+..|++.++..+ .+...|..+..+|.+.|++++|+..|....+..  +-+..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~--p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC--TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC--CCcHHHHHHH
Confidence            6777788888899999999999999999887753 577888889999999999999999999998875  5678888999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 022131          192 IGMFMALNRMDMVREIWNDVKG  213 (302)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~  213 (302)
                      ..+|...|++++|...|++..+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999988765

>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=98.72  E-value=6.9e-07  Score=61.11  Aligned_cols=87  Identities=15%  Similarity=0.087  Sum_probs=37.7

Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKE  238 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  238 (302)
                      |.+.|++++|...|.+..+..  +.+...|..+..+|...|++++|...|++..+.. +-+...|..+..++...|++++
T Consensus        20 ~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHH
Confidence            334444444444444444443  3344444444444444444444444444444331 2233444444444444444444


Q ss_pred             HHHHHHHHHH
Q 022131          239 ACQYFVEMIE  248 (302)
Q Consensus       239 a~~~~~~~~~  248 (302)
                      |...+++...
T Consensus        97 A~~~~~~a~~  106 (159)
T d1a17a_          97 ALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=98.72  E-value=7.9e-07  Score=60.81  Aligned_cols=107  Identities=13%  Similarity=0.020  Sum_probs=91.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMF  195 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (302)
                      .+....+.|.+.|++++|+..|++..+... -+...|..+..+|...|++++|...|.+..+..  +.+...|..+..++
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~~~~a~~~~g~~~   88 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASN   88 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--ccchHHHHHHHHHH
Confidence            455667789999999999999999998854 578899999999999999999999999999986  67889999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022131          196 MALNRMDMVREIWNDVKGSGLGPDLDSYTML  226 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  226 (302)
                      ...|++++|...+++..... +-+...+..+
T Consensus        89 ~~~g~~~eA~~~~~~a~~~~-p~~~~~~~~l  118 (159)
T d1a17a_          89 MALGKFRAALRDYETVVKVK-PHDKDAKMKY  118 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            99999999999999998863 2234444443

>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=98.65  E-value=3.8e-07  Score=64.98  Aligned_cols=100  Identities=7%  Similarity=-0.091  Sum_probs=89.7

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      |++..+......+.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|+..|++..+..+ -+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHHH
Confidence            778888889999999999999999999998886 34888999999999999999999999999987643 3677899999


Q ss_pred             HHHHccCCchHHHHHHHHHHhC
Q 022131          157 KEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      .+|...|++++|+..|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988764

>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=98.59  E-value=3.7e-07  Score=59.24  Aligned_cols=86  Identities=12%  Similarity=0.020  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---chhHHHHHHHHHhcCCCcC-HHHHHHHHHHHhccCCHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQ---PQLSLDKLNFMKEKGICPT-VATYSSVVKCLCSCGRIED  132 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~  132 (302)
                      .+++++|.+.|++....+ +.+..++..+..++.+.++   .++|+.+++++...+..|+ ..++..+..+|.+.|++++
T Consensus        12 ~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~   90 (122)
T d1nzna_          12 VEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   90 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhhHH
Confidence            555555555555555543 2345555555555554333   2345555555554432222 1244555555555566666


Q ss_pred             HHHHHHHHHHC
Q 022131          133 AEELLGEMVRN  143 (302)
Q Consensus       133 a~~~~~~~~~~  143 (302)
                      |...|+++.+.
T Consensus        91 A~~~~~~aL~~  101 (122)
T d1nzna_          91 ALKYVRGLLQT  101 (122)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            66666655553

>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=98.57  E-value=3.9e-07  Score=59.12  Aligned_cols=101  Identities=13%  Similarity=0.108  Sum_probs=66.6

Q ss_pred             HHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 022131          153 NCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNR---MDMVREIWNDVKGSGLGPD-LDSYTMLIH  228 (302)
Q Consensus       153 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~  228 (302)
                      ..++..+...+++++|.+.|+.....+  +.+..++..+..++.+.++   .++|..+++++......|+ ..++..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            345666667777777777777777765  5677777777777765443   4457777777766432222 235666777


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCchhh
Q 022131          229 GLCEKQKWKEACQYFVEMIEKGLLPQKVT  257 (302)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  257 (302)
                      +|.+.|++++|.+.|+++++  +.|+..-
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~--~~P~~~~  107 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ--TEPQNNQ  107 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             HHHHHhhhHHHHHHHHHHHH--hCcCCHH
Confidence            77777888888888777776  3565443

>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=98.55  E-value=5.5e-05  Score=55.98  Aligned_cols=228  Identities=11%  Similarity=-0.038  Sum_probs=156.5

Q ss_pred             HHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCchhHHHHHHHHHhcC
Q 022131           34 VVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSR----AHQPQLSLDKLNFMKEKG  109 (302)
Q Consensus        34 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~  109 (302)
                      +..+..|-..+.+          .+++++|++.|++..+.|   +...+..|...|..    ..+...|...++...+.+
T Consensus         2 p~~~~~lG~~~~~----------~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           2 PKELVGLGAKSYK----------EKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             HHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHH----------CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            4455566556666          778999999999998876   56666667777776    557788888988888776


Q ss_pred             CCcCHHHHHHHHHHHh----ccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH----ccCCchHHHHHHHHHHhCCCC
Q 022131          110 ICPTVATYSSVVKCLC----SCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR----GRKDANGAMKLYRQMKEDGLC  181 (302)
Q Consensus       110 ~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~  181 (302)
                         +......+...+.    ...+.+.|...++...+.|.   ......+...+.    .......+...+......   
T Consensus        69 ---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---  139 (265)
T d1ouva_          69 ---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---  139 (265)
T ss_dssp             ---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---
T ss_pred             ---ccchhhccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---
Confidence               3334444444443    35678899999999888754   222333333333    233455666666666554   


Q ss_pred             CCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCC
Q 022131          182 VPNMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCE----KQKWKEACQYFVEMIEKGLLP  253 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p  253 (302)
                       .+...+..+...+..    ..+...+...++...+.|   +......+...|..    ..++++|...|.+..+.|   
T Consensus       140 -~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---  212 (265)
T d1ouva_         140 -NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---  212 (265)
T ss_dssp             -TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---
T ss_pred             -cccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---
Confidence             466677778777775    456778888888887754   56666666666655    568999999999998876   


Q ss_pred             chhhHHHHHHHHhh----cchHHHHHHHHHhccccCCCccc
Q 022131          254 QKVTFETLYRGLIQ----SDMLRTWRRLKKKLDEESITFGS  290 (302)
Q Consensus       254 ~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~  290 (302)
                      ++..+..|...|.+    ..+.++|.+++++..+.|.....
T Consensus       213 ~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~A~  253 (265)
T d1ouva_         213 NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGAC  253 (265)
T ss_dssp             CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHHHH
Confidence            34455556666654    34788999999988877765433

>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=98.55  E-value=6.2e-07  Score=57.32  Aligned_cols=84  Identities=8%  Similarity=-0.080  Sum_probs=34.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHH
Q 022131          195 FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTW  274 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  274 (302)
                      +.+.|++++|...+++..... +-+...|..+..++.+.|++++|+..+++..+.. +-+...+..+...+...|++++|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHH
Confidence            334444444444444444321 1133444444444444444444444444443321 11233344444444444444444


Q ss_pred             HHHHHh
Q 022131          275 RRLKKK  280 (302)
Q Consensus       275 ~~~~~~  280 (302)
                      .+.+++
T Consensus       104 ~~~l~~  109 (112)
T d1hxia_         104 LASLRA  109 (112)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.51  E-value=1.1e-06  Score=56.04  Aligned_cols=82  Identities=7%  Similarity=-0.055  Sum_probs=30.6

Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEA  239 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  239 (302)
                      .+.|++++|...|++.....  +-+...|..+..++.+.|++++|...+++..+.. +.+...+..+..+|...|++++|
T Consensus        27 ~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          27 LKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHH
Confidence            33333333333333333332  2233333333333333444444444443333321 11233333333333444444444


Q ss_pred             HHHHH
Q 022131          240 CQYFV  244 (302)
Q Consensus       240 ~~~~~  244 (302)
                      .+.++
T Consensus       104 ~~~l~  108 (112)
T d1hxia_         104 LASLR  108 (112)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            43333

>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=98.36  E-value=2.4e-05  Score=53.83  Aligned_cols=61  Identities=11%  Similarity=0.006  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      +|+.+..+|.+.|++++|...++..+... +.++..+..+..+|...|++++|+..|++..+
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            34445555555666666666665555542 22455555555556666666666666665554

>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=98.35  E-value=1.3e-05  Score=55.22  Aligned_cols=125  Identities=10%  Similarity=-0.065  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYR  160 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  160 (302)
                      .+......+.+.|++++|+..|.+..+.......              ....-......+       ...+|+.+..+|.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~-------~~~~~~nla~~y~   73 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL-------RLASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh-------HHHHHHHHHHHHH
Confidence            3444556677788888888888777654211000              000000000000       1124555666666


Q ss_pred             ccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022131          161 GRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHG  229 (302)
Q Consensus       161 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  229 (302)
                      +.|++++|+..++......  |.++..+..+..++...|++++|...|++..+.. +-+......+-.+
T Consensus        74 k~~~~~~A~~~~~~al~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~  139 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVC  139 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhcc--ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            7777777777777776664  4566667777777777777777777777766642 1244444444333

>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=98.31  E-value=0.00025  Score=52.29  Aligned_cols=224  Identities=10%  Similarity=0.014  Sum_probs=151.4

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 022131            4 SLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFS   83 (302)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   83 (302)
                      .|-..+.+.+++++|++.|++..+.|   +...+..|-..|......      ..+...+...++.....+   +.....
T Consensus         7 ~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~------~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           7 GLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGV------EKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS------CCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCc------chhHHHHHHhhccccccc---ccchhh
Confidence            34556678899999999999998876   445555555555542212      446788899999888775   344444


Q ss_pred             HHHHHHHh----cCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHh----ccCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 022131           84 IVLHVYSR----AHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLC----SCGRIEDAEELLGEMVRNGVCPSAETYNCF  155 (302)
Q Consensus        84 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  155 (302)
                      .+...+..    ..+.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            55444443    45667888899988887633   22233333333    344567777777777664   466777777


Q ss_pred             HHHHHc----cCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022131          156 FKEYRG----RKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGLGPDLDSYTMLI  227 (302)
Q Consensus       156 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  227 (302)
                      ...+..    ..+...+...+....+.+    +......+...+..    ..+.+.|...|++..+.|   ++..+..|.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g----~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG  221 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK----DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  221 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc----ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHH
Confidence            777765    445567777777777654    55566666666655    568999999999998875   556666677


Q ss_pred             HHHHH----cCCHHHHHHHHHHHHHCCCC
Q 022131          228 HGLCE----KQKWKEACQYFVEMIEKGLL  252 (302)
Q Consensus       228 ~~~~~----~g~~~~a~~~~~~~~~~~~~  252 (302)
                      ..|.+    ..+.++|.+.|++..+.|..
T Consensus       222 ~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         222 AMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            77664    34788899999888777643

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=1e-05  Score=52.83  Aligned_cols=93  Identities=17%  Similarity=0.271  Sum_probs=58.9

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-----HHHHHHHH
Q 022131          154 CFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG-PD-----LDSYTMLI  227 (302)
Q Consensus       154 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~li  227 (302)
                      .+...+...|++++|+..|.+..+.+  +.+..++..+..+|.+.|++++|.+.++++++.... +.     ..+|..+.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            34455666677777777777766664  556667777777777777777777777766542100 01     13455566


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 022131          228 HGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ..+...+++++|++.|.+...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            666677777777777776654

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.28  E-value=1.2e-05  Score=52.46  Aligned_cols=96  Identities=13%  Similarity=0.112  Sum_probs=62.2

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CC-----hhhHHHH
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVC-PS-----AETYNCF  155 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l  155 (302)
                      +..+...+.+.|++++|+..|.+.++.+. .+...+..+..+|.+.|++++|+..++++++.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            34556667777777777777777777653 36667777777777777777777777776653210 01     1345555


Q ss_pred             HHHHHccCCchHHHHHHHHHHhC
Q 022131          156 FKEYRGRKDANGAMKLYRQMKED  178 (302)
Q Consensus       156 ~~~~~~~~~~~~a~~~~~~~~~~  178 (302)
                      ...+...+++++|...|......
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            55666666777777777666554

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.19  E-value=4e-05  Score=51.59  Aligned_cols=105  Identities=10%  Similarity=-0.066  Sum_probs=60.3

Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHhcCCC----cCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 022131           84 IVLHVYSRAHQPQLSLDKLNFMKEKGIC----PTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEY  159 (302)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  159 (302)
                      .-...+.+.|++++|+..|.+..+.-..    ++....                    .....    ....+++.+..+|
T Consensus        22 ~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~--------------------~~~~~----~~~~~~~Nla~~~   77 (153)
T d2fbna1          22 EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL--------------------DKKKN----IEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH--------------------HHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH--------------------Hhhhh----HHHHHHhhHHHHH
Confidence            3445566788888888888877653110    011000                    00000    0123455566666


Q ss_pred             HccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          160 RGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       160 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      .+.|++++|+..+....+..  +.+..+|..+..++...|++++|...|+...+.
T Consensus        78 ~~l~~~~~Al~~~~~al~~~--p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhcccchhhhhhhcccccc--chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66666666666666666654  556666666666666666666666666666654

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.19  E-value=2.9e-05  Score=53.28  Aligned_cols=63  Identities=11%  Similarity=-0.083  Sum_probs=36.7

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          150 ETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       150 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      ..+..+..++.+.|++++|+..+.++.+..  +.+...|..+..++...|++++|...|++..+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~--p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhh--hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344445555566666666666666665554  455555666666666666666666666665553

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.17  E-value=7.8e-05  Score=50.11  Aligned_cols=124  Identities=10%  Similarity=-0.026  Sum_probs=87.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMF  195 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (302)
                      .+..-...+.+.|++.+|+..|++..+.-.  ...           . ..+....  ....     .....+++.+..+|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~--~~~-----------~-~~~~~~~--~~~~-----~~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFI--HTE-----------E-WDDQILL--DKKK-----NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTT--TCT-----------T-CCCHHHH--HHHH-----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCc--chh-----------h-hhhHHHH--Hhhh-----hHHHHHHhhHHHHH
Confidence            344556677788999999999998876411  100           0 0000000  0000     12235778899999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHH
Q 022131          196 MALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYR  263 (302)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  263 (302)
                      .+.|++++|.+.++...+.. +.+..+|..+..++...|++++|+..|++..+  +.|+.......+.
T Consensus        78 ~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l~  142 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSYE  142 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHH
T ss_pred             HHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            99999999999999998863 45889999999999999999999999999988  4575544433333

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.15  E-value=2e-05  Score=52.54  Aligned_cols=98  Identities=8%  Similarity=0.019  Sum_probs=70.7

Q ss_pred             HHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 022131            9 WCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHV   88 (302)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   88 (302)
                      |-+.+.+++|++.|+...+.. |-+..++..+-.++...+.......-.+.+++|+..|++..+.+ +.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            456788999999999998873 55677888888888875555544444677889999999998875 3367788888888


Q ss_pred             HHhcCC-----------chhHHHHHHHHHhc
Q 022131           89 YSRAHQ-----------PQLSLDKLNFMKEK  108 (302)
Q Consensus        89 ~~~~~~-----------~~~a~~~~~~~~~~  108 (302)
                      |...|+           ++.|.+.|++..+.
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l  115 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE  115 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhccccc
Confidence            876553           34455555555544

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.13  E-value=4.7e-05  Score=52.21  Aligned_cols=132  Identities=8%  Similarity=-0.013  Sum_probs=86.5

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHh
Q 022131          118 SSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMA  197 (302)
Q Consensus       118 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (302)
                      ......+.+.|++++|+..|++.++..            ..........       ......  +.....+..+..++.+
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~------------~~~~~~~~~~-------~~~~~~--~~~~~~~~nla~~~~~   89 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYV------------EGSRAAAEDA-------DGAKLQ--PVALSCVLNIGACKLK   89 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH------------HHHHHHSCHH-------HHGGGH--HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhh------------hhhhhhhhhH-------HHHHhC--hhhHHHHHHHHHHHHh
Confidence            345556677788888888887765420            0000000000       001111  3455677888889999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-chhhHHHHHHHHhhcchHHH
Q 022131          198 LNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLP-QKVTFETLYRGLIQSDMLRT  273 (302)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~  273 (302)
                      .|++++|+..+.++++.. +.+...|..+..++...|++++|+..|++..+.  .| +......+..+..+.....+
T Consensus        90 ~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          90 MSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             TTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998863 457788999999999999999999999999884  45 44455555555444444433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.11  E-value=7.1e-05  Score=51.20  Aligned_cols=108  Identities=6%  Similarity=-0.062  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHhc---CCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 022131           81 SFSIVLHVYSRAHQPQLSLDKLNFMKEK---GICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFK  157 (302)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  157 (302)
                      .+......+.+.|++++|...|.+....   ....+..                 .....+.+       ....|+.+..
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~-----------------~~~~~~~~-------~~~~~~Nla~   72 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEK-----------------ESKASESF-------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHH-----------------HHHHHHHH-------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchh-----------------hhhhcchh-------HHHHHHhHHH
Confidence            4455666788889999999988876542   1111100                 00000000       1223444555


Q ss_pred             HHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022131          158 EYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS  214 (302)
Q Consensus       158 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (302)
                      +|...|++++|+..+....+..  +.+...|..+..++...|++++|...|+++.+.
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHhhhcccchhhhhhhhhcc--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5666666666666666666654  556666666666666666666666666666654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.10  E-value=0.00071  Score=51.42  Aligned_cols=232  Identities=8%  Similarity=-0.034  Sum_probs=124.6

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 022131            5 LIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTSFSI   84 (302)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   84 (302)
                      +..-|.+.|.++.|..+|..+.         -|..++..+.+          .++++.|.+.+....      +..+|..
T Consensus        20 i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~----------l~~~~~avd~~~k~~------~~~~~k~   74 (336)
T d1b89a_          20 VGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVH----------LGEYQAAVDGARKAN------STRTWKE   74 (336)
T ss_dssp             ---------CTTTHHHHHHHTT---------CHHHHHHHHHT----------TTCHHHHHHHHHHHT------CHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHh----------hccHHHHHHHHHHcC------CHHHHHH
Confidence            3455668888888888887553         25666677777          566666666665432      5668888


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 022131           85 VLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKD  164 (302)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  164 (302)
                      +...+.+......+     .+.......+......++..|-..|.+++...+++..... -..+...++.++..|++.+ 
T Consensus        75 ~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-  147 (336)
T d1b89a_          75 VCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-  147 (336)
T ss_dssp             HHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-
Confidence            88887776554332     2222333345556677888888888888888888877643 2356667778888777764 


Q ss_pred             chHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--------CCCCCHHHHHHHHHHHHHcCCH
Q 022131          165 ANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGS--------GLGPDLDSYTMLIHGLCEKQKW  236 (302)
Q Consensus       165 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~li~~~~~~g~~  236 (302)
                      .++..+.+....  +  .-|.   ..++..|.+.+-++++.-++.++...        ...++..-....+..+.+..+.
T Consensus       148 ~~kl~e~l~~~s--~--~y~~---~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~  220 (336)
T d1b89a_         148 PQKMREHLELFW--S--RVNI---PKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANV  220 (336)
T ss_dssp             HHHHHHHHHHHS--T--TSCH---HHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSST
T ss_pred             hHHHHHHHHhcc--c--cCCH---HHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCCh
Confidence            344444433321  1  1221   22334444444444444333332110        0123433445556666777777


Q ss_pred             HHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHH
Q 022131          237 KEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKK  279 (302)
Q Consensus       237 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  279 (302)
                      +...++.....+.  .|  ...+.++......-+..+..+.++
T Consensus       221 e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~  259 (336)
T d1b89a_         221 ELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFS  259 (336)
T ss_dssp             HHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHH
Confidence            6666666655542  23  334445555554445544444443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.10  E-value=0.00019  Score=49.03  Aligned_cols=130  Identities=12%  Similarity=0.011  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 022131          115 ATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGM  194 (302)
Q Consensus       115 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (302)
                      ..+......+.+.|++.+|...|++....-  +.            ..+...........        .....|+.+..+
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~--~~------------~~~~~~~~~~~~~~--------~~~~~~~Nla~~   73 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWL--EM------------EYGLSEKESKASES--------FLLAAFLNLAMC   73 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TT------------CCSCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HH------------hhccchhhhhhcch--------hHHHHHHhHHHH
Confidence            345666777888899999998888766420  00            00000000011111        123467778889


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchh-hHHHHHHHHhhcc
Q 022131          195 FMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKV-TFETLYRGLIQSD  269 (302)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g  269 (302)
                      |.+.|++++|...++...+. -+.+...|..+..++...|++++|...|.++.+.  .|+.. ....+-......+
T Consensus        74 ~~~l~~~~~Ai~~~~~al~l-~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          74 YLKLREYTKAVECCDKALGL-DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQKKAK  146 (168)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhhhcccchhhhhhhhhc-ccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999886 3568899999999999999999999999999874  55544 4444433333443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.07  E-value=0.00013  Score=50.36  Aligned_cols=125  Identities=14%  Similarity=0.053  Sum_probs=86.2

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhc
Q 022131          119 SVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMAL  198 (302)
Q Consensus       119 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (302)
                      .........|++++|...|.+....-  +...        +.......-+...-..+..     .....+..+...+.+.
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~-----~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVE-----DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHH-----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHH-----HHHHHHHHHHHHHHHC
Confidence            33456778899999999999988752  1110        0011111112222222221     2345677888899999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCchhhHH
Q 022131          199 NRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIE-----KGLLPQKVTFE  259 (302)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~  259 (302)
                      |++++|...++.+... -+-+...|..++.++...|+..+|++.|+++.+     .|+.|+..+-.
T Consensus        81 g~~~~Al~~~~~al~~-~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          81 GRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             TCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             CCchHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            9999999999998886 355888999999999999999999999998743     48999876543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.07  E-value=8.1e-05  Score=51.42  Aligned_cols=124  Identities=10%  Similarity=-0.010  Sum_probs=89.2

Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 022131           83 SIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGR  162 (302)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  162 (302)
                      ..........|++++|.+.|.+....-  +...        +........+...-..+..    .....+..+...+...
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            344467788999999999999998752  1100        0011111112222222222    1345677888999999


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 022131          163 KDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKG-----SGLGPDLDS  222 (302)
Q Consensus       163 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  222 (302)
                      |++++|+..++++.+..  +-+...|..++.++.+.|+.++|.+.|+++..     .|+.|+..+
T Consensus        81 g~~~~Al~~~~~al~~~--P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          81 GRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCchHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999999999999886  78899999999999999999999999998744     588888765

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=1.5e-05  Score=64.94  Aligned_cols=117  Identities=9%  Similarity=-0.073  Sum_probs=73.8

Q ss_pred             CCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 022131           77 PDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFF  156 (302)
Q Consensus        77 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  156 (302)
                      ++...+..+...+.+.|+.+.|...+....+..   ...++..+...+...|++++|...|++..+..+ .+...|+.+.
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg  193 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLA  193 (497)
T ss_dssp             -------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHH
Confidence            345667777788888888888888777665532   235677788889999999999999999988743 4668899999


Q ss_pred             HHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcC
Q 022131          157 KEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALN  199 (302)
Q Consensus       157 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (302)
                      ..+...|+..+|...|.+.....  +|...++..|...+.+..
T Consensus       194 ~~~~~~~~~~~A~~~y~ral~~~--~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         194 ILASSKGDHLTTIFYYCRSIAVK--FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHSSS--BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCC--CCCHHHHHHHHHHHHHhh
Confidence            99999999999999999998876  688888888887776543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=3.9e-05  Score=62.45  Aligned_cols=166  Identities=12%  Similarity=-0.026  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHH--HHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHH
Q 022131           60 IRNAEKVFDEMRVRGIEPDVTSFSIVLHV--YSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELL  137 (302)
Q Consensus        60 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  137 (302)
                      +..+.+.++...+....++..-....+..  ....+.++.++..+....+.. +++...+..+...+.+.|+.++|...+
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------C
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            34456666666554333333322222211  222344555555544443332 235556777888888999999998887


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022131          138 GEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLG  217 (302)
Q Consensus       138 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (302)
                      +......   ...++..+...+...|++++|...|.+..+..  +.+...|+.+...+...|+..+|...|.+..... +
T Consensus       144 ~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~  217 (497)
T d1ya0a1         144 SSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-F  217 (497)
T ss_dssp             CHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-B
T ss_pred             HHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-C
Confidence            7766531   23567788889999999999999999999986  6778899999999999999999999999988763 4


Q ss_pred             CCHHHHHHHHHHHHH
Q 022131          218 PDLDSYTMLIHGLCE  232 (302)
Q Consensus       218 ~~~~~~~~li~~~~~  232 (302)
                      |...++..|...+.+
T Consensus       218 ~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         218 PFPAASTNLQKALSK  232 (497)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            667777777666644

>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=97.96  E-value=1.3e-05  Score=59.25  Aligned_cols=122  Identities=16%  Similarity=0.039  Sum_probs=67.3

Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022131          125 CSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMV  204 (302)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (302)
                      .+.|++++|+..+++..+..+ .+...+..+...++..|++++|...++...+..  +.+...+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHHH
Confidence            455777777777777776643 466777777777777777777777777777663  33344444443333332222222


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 022131          205 REIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEK  249 (302)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  249 (302)
                      ..-.......+-+++...+......+...|+.++|.+.+.++.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111111011111122233333445566778888888888777653

>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=97.90  E-value=0.0024  Score=48.45  Aligned_cols=240  Identities=8%  Similarity=0.016  Sum_probs=139.4

Q ss_pred             hHHHHHHHHhcCCcchHHHHHHHHHhCCCcccHHHHHHHHHHHHhcccCCcchhhHHHHHHHHHHHHHHHhcCCCCCHHH
Q 022131            2 YTSLIYGWCKINRIDMAERFLGEMIERGVEPNVVTYNVLLNGVCRRASLHPSERFEKTIRNAEKVFDEMRVRGIEPDVTS   81 (302)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   81 (302)
                      |..++..+.+.++++.|.+++...      -+..+|..+...+.+          ......     ..+.......++..
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~----------~~e~~l-----a~i~~~~~~~~~d~  101 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVD----------GKEFRL-----AQMCGLHIVVHADE  101 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHH----------TTCHHH-----HHHTTTTTTTCHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHh----------CcHHHH-----HHHHHHHhhcCHHH
Confidence            445666677777777766665433      155677777777766          222211     12223334456677


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC----------hhh
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPS----------AET  151 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----------~~~  151 (302)
                      ...++..|-..|.++....+++...... ..+...++.++.+|++.+ .++   +.+.+.......+          ...
T Consensus       102 l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~k---l~e~l~~~s~~y~~~k~~~~c~~~~l  176 (336)
T d1b89a_         102 LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQK---MREHLELFWSRVNIPKVLRAAEQAHL  176 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHH---HHHHHHHHSTTSCHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHH---HHHHHHhccccCCHHHHHHHHHHcCC
Confidence            7889999999999999999999876542 457778899999999864 333   3333333211112          123


Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-----
Q 022131          152 YNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTML-----  226 (302)
Q Consensus       152 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----  226 (302)
                      |..++-.|.+.|+++.|..+.-.-      +++..-....+..+.+.++.+...++.....+.  .|  ...+.+     
T Consensus       177 ~~elv~Ly~~~~~~~~A~~~~i~~------~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~  246 (336)
T d1b89a_         177 WAELVFLYDKYEEYDNAIITMMNH------PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLS  246 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHS------TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHG
T ss_pred             hHHHHHHHHhcCCHHHHHHHHHHc------chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhc
Confidence            445555555666665554433221      233323344555666667766666665555442  22  233333     


Q ss_pred             --------HHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHh
Q 022131          227 --------IHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKK  280 (302)
Q Consensus       227 --------i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  280 (302)
                              +..+-+.++.......++...+.|   +..+.+++...|...++++.-++..+.
T Consensus       247 ~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i~~  305 (336)
T d1b89a_         247 PRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSIDA  305 (336)
T ss_dssp             GGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHHHH
Confidence                    344445555555555555544433   346788888999999987665555443

>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=97.87  E-value=6.5e-05  Score=49.99  Aligned_cols=75  Identities=7%  Similarity=0.038  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-----------CHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcch
Q 022131          202 DMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQ-----------KWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDM  270 (302)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----------~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  270 (302)
                      ++|...|++..+.. +.+..+|..+..+|...|           .+++|.+.|++..+  +.|+...+..-+..+     
T Consensus        58 ~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~-----  129 (145)
T d1zu2a1          58 QEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT-----  129 (145)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH-----
Confidence            44555555544431 223444444444444332           35777777777776  467666555444333     


Q ss_pred             HHHHHHHHHhccccC
Q 022131          271 LRTWRRLKKKLDEES  285 (302)
Q Consensus       271 ~~~a~~~~~~~~~~~  285 (302)
                       .++.+++.+..+.|
T Consensus       130 -~ka~~~~~e~~k~~  143 (145)
T d1zu2a1         130 -AKAPQLHAEAYKQG  143 (145)
T ss_dssp             -HTHHHHHHHHHHSS
T ss_pred             -HHHHHHHHHHHHHh
Confidence             34444554444443

>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=97.82  E-value=2e-05  Score=58.26  Aligned_cols=126  Identities=12%  Similarity=-0.012  Sum_probs=85.7

Q ss_pred             HHccCCchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHH
Q 022131          159 YRGRKDANGAMKLYRQMKEDGLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWK  237 (302)
Q Consensus       159 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~  237 (302)
                      ..+.|++++|+..+++..+..  +.|...+..+...++..|++++|...++...+.  .|+ ...+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccH
Confidence            457899999999999999987  788999999999999999999999999999885  344 344444444443333333


Q ss_pred             HHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCCc
Q 022131          238 EACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESITF  288 (302)
Q Consensus       238 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  288 (302)
                      ++..-.......+-.++..........+...|+.++|.+.++++.+.....
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~  132 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEK  132 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCC
Confidence            322211110000111222334445567788999999999998877655443

>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=97.52  E-value=0.0017  Score=43.45  Aligned_cols=63  Identities=16%  Similarity=0.061  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 022131          186 HSYNILIGMFMALNRMDMVREIWNDVKGS-----GLGPD-----LDSYTMLIHGLCEKQKWKEACQYFVEMIE  248 (302)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~  248 (302)
                      ..|+.+..+|...|++++|...+++..+.     ...++     ...++.+..+|...|++++|+..|++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677777788888888887777776541     11121     22466677888888999999998888764

>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=97.40  E-value=0.0025  Score=42.50  Aligned_cols=57  Identities=9%  Similarity=-0.003  Sum_probs=32.5

Q ss_pred             HHHHHhcCCchhHHHHHHHHHhcCCC-c----------CHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           86 LHVYSRAHQPQLSLDKLNFMKEKGIC-P----------TVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      ...+.+.|++++|++.|++..+.... |          ....|+.+..+|...|++++|...+++...
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~   83 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   83 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhh
Confidence            33455567777777777766553110 1          124556666666666666666666665543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=0.002  Score=38.89  Aligned_cols=62  Identities=8%  Similarity=-0.106  Sum_probs=28.7

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHhcC-----CCc-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 022131           82 FSIVLHVYSRAHQPQLSLDKLNFMKEKG-----ICP-TVATYSSVVKCLCSCGRIEDAEELLGEMVRN  143 (302)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  143 (302)
                      +-.+...+.+.|+++.|...|++..+..     ..+ ...++..+..++.+.|++++|+..++++.+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344455555555555555555443321     011 1234444555555555555555555555443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.25  E-value=0.0022  Score=38.72  Aligned_cols=75  Identities=11%  Similarity=0.009  Sum_probs=57.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCC-----CCC-ChhhHHHHHHHHHccCCchHHHHHHHHHHhCCCCCCCHHHHH
Q 022131          116 TYSSVVKCLCSCGRIEDAEELLGEMVRNG-----VCP-SAETYNCFFKEYRGRKDANGAMKLYRQMKEDGLCVPNMHSYN  189 (302)
Q Consensus       116 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  189 (302)
                      .+-.+...+.+.|++++|...|++..+..     ..+ ...++..+..++.+.|++++|...++++.+..  |-+..+++
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~--P~~~~a~~   84 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD--PEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC--cCCHHHHH
Confidence            34467888889999999999998876531     112 25678888999999999999999999998885  55666666


Q ss_pred             HHH
Q 022131          190 ILI  192 (302)
Q Consensus       190 ~l~  192 (302)
                      .+.
T Consensus        85 Nl~   87 (95)
T d1tjca_          85 NLK   87 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.07  E-value=0.0062  Score=39.25  Aligned_cols=112  Identities=9%  Similarity=-0.011  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhc----cCCHHH
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCS----CGRIED  132 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~  132 (302)
                      ..++++|+++|++..+.|.   ......|.  .....+.++|.+.+++..+.|   +......|...|..    ..+.++
T Consensus         6 ~kd~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHH
Confidence            5566777777777666652   22222232  223455667777777766665   33444444444443    346677


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCchHHHHHHHHHHhCC
Q 022131          133 AEELLGEMVRNGVCPSAETYNCFFKEYRG----RKDANGAMKLYRQMKEDG  179 (302)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  179 (302)
                      |.++|++..+.|   ++.....|...|..    ..+.++|..+|....+.|
T Consensus        78 A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          78 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            777777777664   33444445445543    346677777777777666

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.94  E-value=0.019  Score=36.80  Aligned_cols=112  Identities=13%  Similarity=-0.002  Sum_probs=80.7

Q ss_pred             CCchhHHHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCchHH
Q 022131           93 HQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRG----RKDANGA  168 (302)
Q Consensus        93 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  168 (302)
                      .|+++|.++|++..+.|..   .....+.  .....+.++|+.++++..+.|   ++.....+...|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            3678899999998888733   2233333  344568899999999998875   45555666666654    4567899


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCC
Q 022131          169 MKLYRQMKEDGLCVPNMHSYNILIGMFMA----LNRMDMVREIWNDVKGSGL  216 (302)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  216 (302)
                      .++|++..+.+    ++.....|...|..    ..+.++|.+.|++..+.|.
T Consensus        79 ~~~~~~aa~~g----~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLN----DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccC----cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            99999999876    33455566666655    4689999999999988764

>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=96.22  E-value=0.059  Score=33.63  Aligned_cols=64  Identities=14%  Similarity=0.177  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 022131          187 SYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGL  251 (302)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  251 (302)
                      .+...++.....|+-+.-.++++.+.+. -+|++...-.+..+|.+.|...++.+++.+..+.|+
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3455566666666666666666665553 456666666666777777777777777776666664

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.53  E-value=0.13  Score=32.09  Aligned_cols=68  Identities=9%  Similarity=-0.080  Sum_probs=57.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchhhHHHHHHHHhhcchHHHHHHHHHhccccCCC
Q 022131          219 DLDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKVTFETLYRGLIQSDMLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       219 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  287 (302)
                      +....+..++....+|+-+.-.+++..+.+. -.|++...-.+..+|.+-|...++.+++.+.-+.|+.
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            5566777888899999999999999997664 4678888889999999999999999999999888864

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.36  E-value=0.3  Score=30.37  Aligned_cols=51  Identities=8%  Similarity=0.034  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCCchhHHHHHHHHHhc
Q 022131           57 EKTIRNAEKVFDEMRVRGIEPD-VTSFSIVLHVYSRAHQPQLSLDKLNFMKEK  108 (302)
Q Consensus        57 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  108 (302)
                      ..++++++.+|++....+ +.+ ...+-.|.-+|.+.|++++|.+.++.+++.
T Consensus        51 ~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          51 VNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             HHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            456666666666666542 112 234445555666666666666666666665

>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=93.91  E-value=0.38  Score=29.89  Aligned_cols=72  Identities=11%  Similarity=0.054  Sum_probs=39.3

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCchh
Q 022131          182 VPNMHSYNILIGMFMALN---RMDMVREIWNDVKGSGLGPD-LDSYTMLIHGLCEKQKWKEACQYFVEMIEKGLLPQKV  256 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  256 (302)
                      .++..+--....++.+..   +.++++.+++.+.+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+.+  +.|+-.
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            344445444444555443   3456666666666532 112 23445566666677777777777777766  345443

>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=93.85  E-value=0.31  Score=28.65  Aligned_cols=31  Identities=23%  Similarity=0.213  Sum_probs=13.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022131          182 VPNMHSYNILIGMFMALNRMDMVREIWNDVK  212 (302)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (302)
                      .|++....+.+++|-+.+++..|.++++.++
T Consensus        38 VPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          38 VPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444444444444444444444444433

>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=93.39  E-value=0.38  Score=28.25  Aligned_cols=44  Identities=9%  Similarity=0.110  Sum_probs=21.9

Q ss_pred             HHHHHHHHhcCCCcCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 022131           99 LDKLNFMKEKGICPTVATYSSVVKCLCSCGRIEDAEELLGEMVR  142 (302)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  142 (302)
                      .+-++.+.....-|++....+.+++|.|.+++..|.++|+-++.
T Consensus        26 rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          26 RKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            33344444444455555555555555555555555555555443

>d1khda1 a.46.2.1 (A:12-80) Anthranilate phosphoribosyltransferase (TrpD) {Pectobacterium carotovorum [TaxId: 554]}

class: All alpha proteins
fold: Methionine synthase domain-like
superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
domain: Anthranilate phosphoribosyltransferase (TrpD)
species: Pectobacterium carotovorum [TaxId: 554]

Probab=80.82  E-value=2.8  Score=22.60  Aligned_cols=18  Identities=6%  Similarity=-0.127  Sum_probs=8.8

Q ss_pred             hHHHHHHHHHhccccCCC
Q 022131          270 MLRTWRRLKKKLDEESIT  287 (302)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~  287 (302)
                      ..++...+.+-|.+.+.+
T Consensus        50 t~dEi~g~~~am~~~~~~   67 (69)
T d1khda1          50 RPEEIAGAASALLADAQP   67 (69)
T ss_dssp             CHHHHHHHHHHHHHTSCC
T ss_pred             CHHHHHHHHHHHHHhCCC
Confidence            444555555555554443