Citrus Sinensis ID: 043124

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-
Protein Sequence
MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYVPELEAML
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHcccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHcccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mpardiisWTTMITCYSQNKQFREALDAFNemknsgispdqVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIyenvepngVTFISVLSACTHAGLVEEGRRRFLSMtcgysitpevehYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELmilepnnsgyCTLLLNMYAEVSRWAEVTKIRVAMKELgiekrcpgsswiEMERKVYQFAasdkshpasdeIYSSLSKLDEQLKLASYVPELEAML
Flexible Loop (DISEMBL)
mpardiiswttmiTCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKElgiekrcpgsswiEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLAsyvpeleaml
Low Complexity Region (SEG)
MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYVPELEAML
Disordered region (IsUnstruct)
*****IISWTTMITCYSQNKQFREALDAFNEM***GISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFA************************************
Disordered Region (DISOPRED)
*PARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYVPELEAML
Disordered Region (DISEMBL)
MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQF**********DEIYSSLSKLDEQLKLASYVPELEAML
Disordered Region (DISPRO)
**ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYVPELE***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYVPELEAML
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	331	2.2.26 [Sep-21-2011]
Q56X05	577	Pentatricopeptide repeat-	yes	no	0.954	0.547	0.637	1e-123
Q9SX45	596	Pentatricopeptide repeat-	no	no	0.990	0.550	0.427	2e-83
O23337	722	Pentatricopeptide repeat-	no	no	0.987	0.452	0.457	3e-81
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.996	0.422	0.419	5e-81
O82380	738	Pentatricopeptide repeat-	no	no	0.996	0.447	0.418	1e-80
Q9STF3	657	Pentatricopeptide repeat-	no	no	0.996	0.502	0.408	2e-79
Q9FMA1	530	Pentatricopeptide repeat-	no	no	0.960	0.6	0.454	3e-79
Q9FI80	646	Pentatricopeptide repeat-	no	no	0.978	0.501	0.436	9e-79
A8MQA3	595	Pentatricopeptide repeat-	no	no	0.984	0.547	0.417	9e-79
Q9STE1	857	Pentatricopeptide repeat-	no	no	0.981	0.379	0.431	1e-78

>sp|Q56X05|PPR15_ARATH Pentatricopeptide repeat-containing protein At1g06145 OS=Arabidopsis thaliana GN=EMB1444 PE=2 SV=2

 Score =  441 bits (1135), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 209/328 (63%), Positives = 263/328 (80%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +DIISWTTMI  YSQNK++REA+  F +M   GI PD+VTM+TV+SACAHLG L++G
Sbjct: 247 MPVKDIISWTTMIKGYSQNKRYREAIAVFYKMMEEGIIPDEVTMSTVISACAHLGVLEIG 306

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +E+H+Y +Q GF +DVYIGSALVDMY+KCGSL+R+LLVFF L +KNLFCWNSIIEGLA H
Sbjct: 307 KEVHMYTLQNGFVLDVYIGSALVDMYSKCGSLERALLVFFNLPKKNLFCWNSIIEGLAAH 366

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           GFA EAL MF +M  E+V+PN VTF+SV +ACTHAGLV+EGRR + SM   YSI   VEH
Sbjct: 367 GFAQEALKMFAKMEMESVKPNAVTFVSVFTACTHAGLVDEGRRIYRSMIDDYSIVSNVEH 426

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YG MV L SKAGL+ +ALELI + +F+PNAVIWGALL GC++H+NL IA IA N+LM+LE
Sbjct: 427 YGGMVHLFSKAGLIYEALELIGNMEFEPNAVIWGALLDGCRIHKNLVIAEIAFNKLMVLE 486

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSGY  LL++MYAE +RW +V +IR  M+ELGIEK CPG+S I ++++ + FAA+DKS
Sbjct: 487 PMNSGYYFLLVSMYAEQNRWRDVAEIRGRMRELGIEKICPGTSSIRIDKRDHLFAAADKS 546

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPELE 328
           H ASDE+   L ++ +Q+ LA YV E E
Sbjct: 547 HSASDEVCLLLDEIYDQMGLAGYVQETE 574

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX45|PPR75_ARATH Pentatricopeptide repeat-containing protein At1g50270 OS=Arabidopsis thaliana GN=PCMP-E42 PE=2 SV=1

 Score =  309 bits (791), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 141/330 (42%), Positives = 220/330 (66%), Gaps = 2/330 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP+R++++WT +I  Y Q++ F + +  F EM  S ++P++ T+++VLSACAH+GAL  G
Sbjct: 266 MPSRNVVTWTALIAGYVQSRCFDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGALHRG 325

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           R +H Y+++   +I+   G+ L+D+Y KCG L+ ++LVF +L EKN++ W ++I G A H
Sbjct: 326 RRVHCYMIKNSIEINTTAGTTLIDLYVKCGCLEEAILVFERLHEKNVYTWTAMINGFAAH 385

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+A +A  +F  M+  +V PN VTF++VLSAC H GLVEEGRR FLSM   +++ P+ +H
Sbjct: 386 GYARDAFDLFYTMLSSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADH 445

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           Y CMVDL  + GLLE+A  LI     +P  V+WGAL G C LH++ E+   A + ++ L+
Sbjct: 446 YACMVDLFGRKGLLEEAKALIERMPMEPTNVVWGALFGSCLLHKDYELGKYAASRVIKLQ 505

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P++SG  TLL N+Y+E   W EV ++R  MK+  + K  PG SWIE++ K+ +F A D  
Sbjct: 506 PSHSGRYTLLANLYSESQNWDEVARVRKQMKDQQVVK-SPGFSWIEVKGKLCEFIAFDDK 564

Query: 301 HP-ASDEIYSSLSKLDEQLKLASYVPELEA 329
            P  SD++Y +L  +  Q++L   + ++ A
Sbjct: 565 KPLESDDLYKTLDTVGVQMRLPDELEDVTA 594

Arabidopsis thaliana (taxid: 3702)

>sp|O23337|PP311_ARATH Pentatricopeptide repeat-containing protein At4g14820 OS=Arabidopsis thaliana GN=PCMP-H3 PE=2 SV=1

 Score =  302 bits (773), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 150/328 (45%), Positives = 217/328 (66%), Gaps = 1/328 (0%)

Query: 4   RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREI 63
           +D++ WTTMI+ Y ++   +EAL  F EM  SGI PD V+M +V+SACA+LG LD  + +
Sbjct: 307 KDLVCWTTMISAYVESDYPQEALRVFEEMCCSGIKPDVVSMFSVISACANLGILDKAKWV 366

Query: 64  HLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFA 123
           H  +   G + ++ I +AL++MYAKCG LD +  VF K+  +N+  W+S+I  L++HG A
Sbjct: 367 HSCIHVNGLESELSINNALINMYAKCGGLDATRDVFEKMPRRNVVSWSSMINALSMHGEA 426

Query: 124 HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGC 183
            +AL++F RM  ENVEPN VTF+ VL  C+H+GLVEEG++ F SMT  Y+ITP++EHYGC
Sbjct: 427 SDALSLFARMKQENVEPNEVTFVGVLYGCSHSGLVEEGKKIFASMTDEYNITPKLEHYGC 486

Query: 184 MVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN 243
           MVDL  +A LL +ALE+I S     N VIWG+L+  C++H  LE+   A   ++ LEP++
Sbjct: 487 MVDLFGRANLLREALEVIESMPVASNVVIWGSLMSACRIHGELELGKFAAKRILELEPDH 546

Query: 244 SGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPA 303
            G   L+ N+YA   RW +V  IR  M+E  + K   G S I+   K ++F   DK H  
Sbjct: 547 DGALVLMSNIYAREQRWEDVRNIRRVMEEKNVFKE-KGLSRIDQNGKSHEFLIGDKRHKQ 605

Query: 304 SDEIYSSLSKLDEQLKLASYVPELEAML 331
           S+EIY+ L ++  +LKLA YVP+  ++L
Sbjct: 606 SNEIYAKLDEVVSKLKLAGYVPDCGSVL 633

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g02750 OS=Arabidopsis thaliana GN=PCMP-H24 PE=3 SV=1

 Score =  301 bits (771), Expect = 5e-81,   Method: Compositional matrix adjust.
 Identities = 139/331 (41%), Positives = 218/331 (65%), Gaps = 1/331 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP RD +SW  MI  YSQ+    EAL  F +M+  G   ++ + ++ LS CA + AL+LG
Sbjct: 369 MPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELG 428

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +++H  +++ G++   ++G+AL+ MY KCGS++ +  +F ++  K++  WN++I G + H
Sbjct: 429 KQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRH 488

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           GF   AL  F+ M  E ++P+  T ++VLSAC+H GLV++GR+ F +MT  Y + P  +H
Sbjct: 489 GFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQH 548

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           Y CMVDLL +AGLLEDA  L+++  F+P+A IWG LLG  ++H N E+A  A +++  +E
Sbjct: 549 YACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAME 608

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSG   LL N+YA   RW +V K+RV M++ G+ K+ PG SWIE++ K + F+  D+ 
Sbjct: 609 PENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGV-KKVPGYSWIEIQNKTHTFSVGDEF 667

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPELEAML 331
           HP  DEI++ L +LD ++K A YV +   +L
Sbjct: 668 HPEKDEIFAFLEELDLRMKKAGYVSKTSVVL 698

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  300 bits (768), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 139/332 (41%), Positives = 220/332 (66%), Gaps = 2/332 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMK-NSGISPDQVTMATVLSACAHLGALDL 59
           MP +DI++W  +I+ Y QN +  EAL  F+E++    +  +Q+T+ + LSACA +GAL+L
Sbjct: 324 MPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALEL 383

Query: 60  GREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAV 119
           GR IH Y+ + G  ++ ++ SAL+ MY+KCG L++S  VF  + ++++F W+++I GLA+
Sbjct: 384 GRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAM 443

Query: 120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE 179
           HG  +EA+ MF +M   NV+PNGVTF +V  AC+H GLV+E    F  M   Y I PE +
Sbjct: 444 HGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEK 503

Query: 180 HYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMIL 239
           HY C+VD+L ++G LE A++ I +    P+  +WGALLG CK+H NL +A +A   L+ L
Sbjct: 504 HYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHANLNLAEMACTRLLEL 563

Query: 240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDK 299
           EP N G   LL N+YA++ +W  V+++R  M+  G++K  PG S IE++  +++F + D 
Sbjct: 564 EPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKE-PGCSSIEIDGMIHEFLSGDN 622

Query: 300 SHPASDEIYSSLSKLDEQLKLASYVPELEAML 331
           +HP S+++Y  L ++ E+LK   Y PE+  +L
Sbjct: 623 AHPMSEKVYGKLHEVMEKLKSNGYEPEISQVL 654

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein At3g46790, chloroplastic OS=Arabidopsis thaliana GN=CRR2 PE=2 SV=1

 Score =  296 bits (757), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 136/333 (40%), Positives = 215/333 (64%), Gaps = 3/333 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEM--KNSGISPDQVTMATVLSACAHLGALD 58
           MP R+++SW+ MI CY++N +  EAL  F EM  +    SP+ VTM +VL ACA L AL+
Sbjct: 243 MPVRNVVSWSAMIACYAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASLAALE 302

Query: 59  LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLA 118
            G+ IH Y+++ G D  + + SALV MY +CG L+    VF ++ ++++  WNS+I    
Sbjct: 303 QGKLIHGYILRRGLDSILPVISALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYG 362

Query: 119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEV 178
           VHG+  +A+ +F+ M+     P  VTF+SVL AC+H GLVEEG+R F +M   + I P++
Sbjct: 363 VHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQI 422

Query: 179 EHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI 238
           EHY CMVDLL +A  L++A ++++  + +P   +WG+LLG C++H N+E+A  A   L  
Sbjct: 423 EHYACMVDLLGRANRLDEAAKMVQDMRTEPGPKVWGSLLGSCRIHGNVELAERASRRLFA 482

Query: 239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASD 298
           LEP N+G   LL ++YAE   W EV +++  ++  G++K  PG  W+E+ RK+Y F + D
Sbjct: 483 LEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQK-LPGRCWMEVRRKMYSFVSVD 541

Query: 299 KSHPASDEIYSSLSKLDEQLKLASYVPELEAML 331
           + +P  ++I++ L KL E +K   Y+P+ + +L
Sbjct: 542 EFNPLMEQIHAFLVKLAEDMKEKGYIPQTKGVL 574

Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  295 bits (756), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 146/321 (45%), Positives = 213/321 (66%), Gaps = 3/321 (0%)

Query: 1   MP--ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALD 58
           MP   R+ +SWT +I+ Y+++ +  EA++ F  M    + PD+VT+  VLSACA LG+L+
Sbjct: 208 MPCWVRNEVSWTCVISGYAKSGRASEAIEVFQRMLMENVEPDEVTLLAVLSACADLGSLE 267

Query: 59  LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLA 118
           LG  I  YV   G +  V + +A++DMYAK G++ ++L VF  + E+N+  W +II GLA
Sbjct: 268 LGERICSYVDHRGMNRAVSLNNAVIDMYAKSGNITKALDVFECVNERNVVTWTTIIAGLA 327

Query: 119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEV 178
            HG   EALAMF+RM+   V PN VTFI++LSAC+H G V+ G+R F SM   Y I P +
Sbjct: 328 THGHGAEALAMFNRMVKAGVRPNDVTFIAILSACSHVGWVDLGKRLFNSMRSKYGIHPNI 387

Query: 179 EHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI 238
           EHYGCM+DLL +AG L +A E+I+S  F+ NA IWG+LL    +H +LE+   A++EL+ 
Sbjct: 388 EHYGCMIDLLGRAGKLREADEVIKSMPFKANAAIWGSLLAASNVHHDLELGERALSELIK 447

Query: 239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASD 298
           LEPNNSG   LL N+Y+ + RW E   +R  MK +G+ K+  G S IE+E +VY+F + D
Sbjct: 448 LEPNNSGNYMLLANLYSNLGRWDESRMMRNMMKGIGV-KKMAGESSIEVENRVYKFISGD 506

Query: 299 KSHPASDEIYSSLSKLDEQLK 319
            +HP  + I+  L ++D Q++
Sbjct: 507 LTHPQVERIHEILQEMDLQIQ 527

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g48910 OS=Arabidopsis thaliana GN=PCMP-H38 PE=2 SV=1

 Score =  293 bits (751), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 142/325 (43%), Positives = 213/325 (65%), Gaps = 1/325 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           M  R ++SW TMI+ YS N  F++A++ F EMK   I P+ VT+ +VL A + LG+L+LG
Sbjct: 234 MRQRSVVSWNTMISGYSLNGFFKDAVEVFREMKKGDIRPNYVTLVSVLPAISRLGSLELG 293

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
             +HLY    G  ID  +GSAL+DMY+KCG +++++ VF +L  +N+  W+++I G A+H
Sbjct: 294 EWLHLYAEDSGIRIDDVLGSALIDMYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIH 353

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G A +A+  F +M    V P+ V +I++L+AC+H GLVEEGRR F  M     + P +EH
Sbjct: 354 GQAGDAIDCFCKMRQAGVRPSDVAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEH 413

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVDLL ++GLL++A E I +   +P+ VIW ALLG C++  N+E+     N LM + 
Sbjct: 414 YGCMVDLLGRSGLLDEAEEFILNMPIKPDDVIWKALLGACRMQGNVEMGKRVANILMDMV 473

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P++SG    L NMYA    W+EV+++R+ MKE  I K  PG S I+++  +++F   D S
Sbjct: 474 PHDSGAYVALSNMYASQGNWSEVSEMRLRMKEKDIRKD-PGCSLIDIDGVLHEFVVEDDS 532

Query: 301 HPASDEIYSSLSKLDEQLKLASYVP 325
           HP + EI S L ++ ++L+LA Y P
Sbjct: 533 HPKAKEINSMLVEISDKLRLAGYRP 557

Arabidopsis thaliana (taxid: 3702)

>sp|A8MQA3|PP330_ARATH Pentatricopeptide repeat-containing protein At4g21065 OS=Arabidopsis thaliana GN=PCMP-H28 PE=2 SV=2

 Score =  293 bits (751), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 137/328 (41%), Positives = 216/328 (65%), Gaps = 2/328 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +D+++W ++I  +++N +  EAL  + EM + GI PD  T+ ++LSACA +GAL LG
Sbjct: 182 MPEKDLVAWNSVINGFAENGKPEEALALYTEMNSKGIKPDGFTIVSLLSACAKIGALTLG 241

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           + +H+Y++++G   +++  + L+D+YA+CG ++ +  +F ++ +KN   W S+I GLAV+
Sbjct: 242 KRVHVYMIKVGLTRNLHSSNVLLDLYARCGRVEEAKTLFDEMVDKNSVSWTSLIVGLAVN 301

Query: 121 GFAHEALAMFDRM-IYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE 179
           GF  EA+ +F  M   E + P  +TF+ +L AC+H G+V+EG   F  M   Y I P +E
Sbjct: 302 GFGKEAIELFKYMESTEGLLPCEITFVGILYACSHCGMVKEGFEYFRRMREEYKIEPRIE 361

Query: 180 HYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMIL 239
           H+GCMVDLL++AG ++ A E I+S   QPN VIW  LLG C +H + ++A  A  +++ L
Sbjct: 362 HFGCMVDLLARAGQVKKAYEYIKSMPMQPNVVIWRTLLGACTVHGDSDLAEFARIQILQL 421

Query: 240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDK 299
           EPN+SG   LL NMYA   RW++V KIR  M   G+ K+ PG S +E+  +V++F   DK
Sbjct: 422 EPNHSGDYVLLSNMYASEQRWSDVQKIRKQMLRDGV-KKVPGHSLVEVGNRVHEFLMGDK 480

Query: 300 SHPASDEIYSSLSKLDEQLKLASYVPEL 327
           SHP SD IY+ L ++  +L+   YVP++
Sbjct: 481 SHPQSDAIYAKLKEMTGRLRSEGYVPQI 508

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE1|PP333_ARATH Pentatricopeptide repeat-containing protein At4g21300 OS=Arabidopsis thaliana GN=PCMP-E36 PE=3 SV=1

 Score =  293 bits (750), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 141/327 (43%), Positives = 212/327 (64%), Gaps = 2/327 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           +  RDI+SW +MIT  +Q+     A+D F +M  SGI  D V+++  LSACA+L +   G
Sbjct: 502 LSKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACANLPSESFG 561

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           + IH ++++     DVY  S L+DMYAKCG+L  ++ VF  ++EKN+  WNSII     H
Sbjct: 562 KAIHGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTMKEKNIVSWNSIIAACGNH 621

Query: 121 GFAHEALAMFDRMIYEN-VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE 179
           G   ++L +F  M+ ++ + P+ +TF+ ++S+C H G V+EG R F SMT  Y I P+ E
Sbjct: 622 GKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQE 681

Query: 180 HYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMIL 239
           HY C+VDL  +AG L +A E ++S  F P+A +WG LLG C+LH+N+E+A +A ++LM L
Sbjct: 682 HYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRLHKNVELAEVASSKLMDL 741

Query: 240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDK 299
           +P+NSGY  L+ N +A    W  VTK+R  MKE  ++K  PG SWIE+ ++ + F + D 
Sbjct: 742 DPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQK-IPGYSWIEINKRTHLFVSGDV 800

Query: 300 SHPASDEIYSSLSKLDEQLKLASYVPE 326
           +HP S  IYS L+ L  +L+L  Y+P+
Sbjct: 801 NHPESSHIYSLLNSLLGELRLEGYIPQ 827

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	331
359493640	464	PREDICTED: pentatricopeptide repeat-cont	0.782	0.558	0.782	1e-156
224065565	933	predicted protein [Populus trichocarpa]	0.782	0.277	0.785	1e-155
356524477	529	PREDICTED: pentatricopeptide repeat-cont	0.782	0.489	0.649	1e-132
449517761	600	PREDICTED: pentatricopeptide repeat-cont	0.924	0.51	0.671	1e-128
449468660	697	PREDICTED: pentatricopeptide repeat-cont	0.779	0.370	0.671	1e-128
297848882	1329	hypothetical protein ARALYDRAFT_311694 [	0.954	0.237	0.652	1e-124
193806402	577	RecName: Full=Pentatricopeptide repeat-c	0.954	0.547	0.637	1e-121
334182333	1322	uncharacterized basic helix-loop-helix p	0.954	0.239	0.637	1e-121
62321090	577	hypothetical protein [Arabidopsis thalia	0.954	0.547	0.637	1e-121
302142959	494	unnamed protein product [Vitis vinifera]	0.963	0.645	0.608	1e-110

>gi|359493640|ref|XP_002282675.2| PREDICTED: pentatricopeptide repeat-containing protein At1g06145-like [Vitis vinifera]

 Score =  556 bits (1433), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 256/327 (78%), Positives = 293/327 (89%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP RDIISWTTMI CYSQNKQFREAL  FNEM+ +GI PD+VTMAT++SACAHLGALDLG
Sbjct: 133 MPNRDIISWTTMIACYSQNKQFREALAVFNEMQTNGIDPDEVTMATIISACAHLGALDLG 192

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +EIHLY M++GFD+DVYIGSAL+DMYAKCGSLD+SL+VFFKLR+KNLFCWNSIIEGLAVH
Sbjct: 193 KEIHLYAMEMGFDLDVYIGSALIDMYAKCGSLDKSLVVFFKLRKKNLFCWNSIIEGLAVH 252

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+A EALAMF RM  E ++PNGVTFISVL ACTHAGLVEEGR+RFLSM+  +SI PE+EH
Sbjct: 253 GYAEEALAMFSRMQREKIKPNGVTFISVLGACTHAGLVEEGRKRFLSMSRDFSIPPEIEH 312

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVDLL KAGLLEDALEL+RS + +PN+VIWGALLGGCKLHRNL+IA +AVNE  +LE
Sbjct: 313 YGCMVDLLGKAGLLEDALELVRSMRMEPNSVIWGALLGGCKLHRNLKIAQVAVNESKVLE 372

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           PNNSGY TLL+NMYAEV+RW+EV  IR  MKELG+EK  PGSSWIEM+RK++QFAASDKS
Sbjct: 373 PNNSGYYTLLVNMYAEVNRWSEVANIRATMKELGVEKTSPGSSWIEMDRKIHQFAASDKS 432

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPEL 327
           H ASDEIY+ L +LD QLKL+ YVPEL
Sbjct: 433 HLASDEIYTLLVELDGQLKLSGYVPEL 459

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065565|ref|XP_002301860.1| predicted protein [Populus trichocarpa] gi|222843586|gb|EEE81133.1| predicted protein [Populus trichocarpa]

 Score =  554 bits (1428), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 257/327 (78%), Positives = 291/327 (88%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MPARDIISWTTMI CYSQNK+FREAL  FNEM   GISPD+VTMATV+SACAHLGALDLG
Sbjct: 203 MPARDIISWTTMINCYSQNKRFREALGVFNEMAKHGISPDEVTMATVISACAHLGALDLG 262

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +EIH Y+MQ GF++DVYIGSAL+DMYAKCGSLDRSLL+FFKLREKNLFCWNS+IEGLAVH
Sbjct: 263 KEIHYYIMQHGFNLDVYIGSALIDMYAKCGSLDRSLLMFFKLREKNLFCWNSVIEGLAVH 322

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+A EALAMFD+M  E ++PNGVTF+SVLSAC HAGL+EEGR+RF SMT  +SI P VEH
Sbjct: 323 GYAEEALAMFDKMEREKIKPNGVTFVSVLSACNHAGLIEEGRKRFASMTRDHSIPPGVEH 382

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVDLLSKAGLLE+AL+LIR+ K +PNAVIWGALL GCKLHRNLEIA +A N+LM+LE
Sbjct: 383 YGCMVDLLSKAGLLEEALQLIRTMKLEPNAVIWGALLSGCKLHRNLEIAQVAANKLMVLE 442

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSGY TLL+NM AEV+RW E  KIR+ MKE G+EKRCPGSSWIEME +V+QFAASDKS
Sbjct: 443 PGNSGYYTLLVNMNAEVNRWGEAAKIRLTMKEQGVEKRCPGSSWIEMESQVHQFAASDKS 502

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPEL 327
           H ASDEIYS L++LD Q+KLA YVPEL
Sbjct: 503 HAASDEIYSLLAELDGQMKLAGYVPEL 529

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524477|ref|XP_003530855.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06145-like [Glycine max]

 Score =  478 bits (1229), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 215/331 (64%), Positives = 275/331 (83%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MPARDIISWTTM+ CYS+NK+++E +  F+++ + G+ PD+VTM TV+SACAHLGAL LG
Sbjct: 199 MPARDIISWTTMMNCYSRNKRYKEVIALFHDVIDKGMIPDEVTMTTVISACAHLGALALG 258

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +E+HLY++  GFD+DVYIGS+L+DMYAKCGS+D +LLVF+KL+ KNLFCWN II+GLA H
Sbjct: 259 KEVHLYLVLQGFDLDVYIGSSLIDMYAKCGSIDMALLVFYKLQTKNLFCWNCIIDGLATH 318

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+  EAL MF  M  + + PN VTFIS+L+ACTHAG +EEGRR F+SM   Y I P+VEH
Sbjct: 319 GYVEEALRMFGEMERKRIRPNAVTFISILTACTHAGFIEEGRRWFMSMVQDYCIAPQVEH 378

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVDLLSKAGLLEDALE+IR+   +PN+ IWGALL GCKLH+NLEIAHIAV  LM+LE
Sbjct: 379 YGCMVDLLSKAGLLEDALEMIRNMTVEPNSFIWGALLNGCKLHKNLEIAHIAVQNLMVLE 438

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P+NSG+ +LL+NMYAE +RW EV KIR  MK+LG+EKRCPGSSW+E+ + V+ FAASD  
Sbjct: 439 PSNSGHYSLLVNMYAEENRWNEVAKIRTTMKDLGVEKRCPGSSWVEINKTVHLFAASDTY 498

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPELEAML 331
           HP+  +++  L++LD+QL+LA YVPEL ++L
Sbjct: 499 HPSYSQLHLLLAELDDQLRLAGYVPELGSIL 529

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517761|ref|XP_004165913.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06145-like [Cucumis sativus]

 Score =  465 bits (1196), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 219/326 (67%), Positives = 268/326 (82%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +DIISWTTMITCYSQNKQ+++AL  ++EM+ +GI PD+VTM+TV SACAH+GAL+LG
Sbjct: 261 MPTKDIISWTTMITCYSQNKQYQDALAIYSEMRLNGIIPDEVTMSTVASACAHIGALELG 320

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +EIH YVM  G ++DVYIGSALVDMYAKCGSLD SLL+FFKL +KNL+CWN++IEGLAVH
Sbjct: 321 KEIHHYVMSQGLNLDVYIGSALVDMYAKCGSLDLSLLIFFKLTDKNLYCWNAVIEGLAVH 380

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+A +AL MF  M  E + PNGVTFIS+LSACTHAGLV+EGR RFLSMT  Y I P++ H
Sbjct: 381 GYAEKALRMFAIMEREKIMPNGVTFISILSACTHAGLVDEGRSRFLSMTRDYDIRPDIRH 440

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVD+LSK+G L +ALELI+S +F+PN++IWGALL GCKLH N EIA  AV +LMILE
Sbjct: 441 YGCMVDMLSKSGYLNEALELIKSMEFEPNSIIWGALLNGCKLHGNCEIAEDAVEQLMILE 500

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSG+  LL++MYAE   W EV  IR  MKE G+EK+ PGSSWIE+E  ++QF+AS  S
Sbjct: 501 PMNSGHYNLLVSMYAEEKDWMEVAHIRSMMKEKGVEKKYPGSSWIELEGTIHQFSASADS 560

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPE 326
           HP SD+IY  L++LD QLKLA Y+ E
Sbjct: 561 HPDSDKIYFILTELDGQLKLAGYILE 586

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468660|ref|XP_004152039.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06145-like [Cucumis sativus]

 Score =  464 bits (1195), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 219/326 (67%), Positives = 268/326 (82%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +DIISWTTMITCYSQNKQ+++AL  ++EM+ +GI PD+VTM+TV SACAH+GAL+LG
Sbjct: 358 MPTKDIISWTTMITCYSQNKQYQDALAIYSEMRLNGIIPDEVTMSTVASACAHIGALELG 417

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +EIH YVM  G ++DVYIGSALVDMYAKCGSLD SLL+FFKL +KNL+CWN++IEGLAVH
Sbjct: 418 KEIHHYVMSQGLNLDVYIGSALVDMYAKCGSLDLSLLIFFKLTDKNLYCWNAVIEGLAVH 477

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+A +AL MF  M  E + PNGVTFIS+LSACTHAGLV+EGR RFLSMT  Y I P++ H
Sbjct: 478 GYAEKALRMFAIMEREKIMPNGVTFISILSACTHAGLVDEGRSRFLSMTRDYDIRPDIRH 537

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVD+LSK+G L +ALELI+S +F+PN++IWGALL GCKLH N EIA  AV +LMILE
Sbjct: 538 YGCMVDMLSKSGYLNEALELIKSMEFEPNSIIWGALLNGCKLHGNCEIAEDAVEQLMILE 597

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSG+  LL++MYAE   W EV  IR  MKE G+EK+ PGSSWIE+E  ++QF+AS  S
Sbjct: 598 PMNSGHYNLLVSMYAEEKDWMEVAHIRSMMKEKGVEKKYPGSSWIELEGTIHQFSASADS 657

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPE 326
           HP SD+IY  L++LD QLKLA Y+ E
Sbjct: 658 HPDSDKIYFVLTELDGQLKLAGYILE 683

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848882|ref|XP_002892322.1| hypothetical protein ARALYDRAFT_311694 [Arabidopsis lyrata subsp. lyrata] gi|297338164|gb|EFH68581.1| hypothetical protein ARALYDRAFT_311694 [Arabidopsis lyrata subsp. lyrata]

 Score =  449 bits (1155), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 214/328 (65%), Positives = 265/328 (80%)

Query: 1    MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
            MP +DIISWTTMI  YS+NK++REA+  F +M   GI PD+VTM+TV+SACAHLG L++G
Sbjct: 999  MPVKDIISWTTMINGYSRNKRYREAIAVFYKMMEEGIIPDEVTMSTVISACAHLGVLEIG 1058

Query: 61   REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
            +E+H+Y +Q GF +DVYIGSALVDMY+KCGSL+R+LLVFF L +KNLFCWNSIIEGLA H
Sbjct: 1059 KEVHMYTVQNGFVLDVYIGSALVDMYSKCGSLERALLVFFNLPKKNLFCWNSIIEGLAAH 1118

Query: 121  GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
            GFA EAL MF +M  E+V+PN VTF+SV +ACTHAGLVEEGRR + SM   YSI   VEH
Sbjct: 1119 GFAQEALKMFAKMEMESVKPNTVTFVSVFTACTHAGLVEEGRRIYRSMIDDYSIVSNVEH 1178

Query: 181  YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
            YGCMV L SKAGL+ +ALELI S +F+PNAVIWGALL GC++H+NLEIA IA N+LMILE
Sbjct: 1179 YGCMVHLFSKAGLIYEALELIGSMEFEPNAVIWGALLDGCRIHKNLEIAEIAFNKLMILE 1238

Query: 241  PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
            P NSGY  LL++MYAE +RW +V +IR  M+ELGIEK CPG+S I ++++ + FAA+DKS
Sbjct: 1239 PMNSGYYFLLVSMYAEQNRWRDVAEIRGRMRELGIEKICPGTSSIRIDKRDHLFAAADKS 1298

Query: 301  HPASDEIYSSLSKLDEQLKLASYVPELE 328
            H ASDE+   L ++ EQ+ LA YV E E
Sbjct: 1299 HSASDEVCLLLDEIYEQMGLAGYVQETE 1326

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|193806402|sp|Q56X05.2|PPR15_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g06145; AltName: Full=Protein EMBRYO DEFECTIVE 1444

 Score =  441 bits (1135), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 209/328 (63%), Positives = 263/328 (80%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +DIISWTTMI  YSQNK++REA+  F +M   GI PD+VTM+TV+SACAHLG L++G
Sbjct: 247 MPVKDIISWTTMIKGYSQNKRYREAIAVFYKMMEEGIIPDEVTMSTVISACAHLGVLEIG 306

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +E+H+Y +Q GF +DVYIGSALVDMY+KCGSL+R+LLVFF L +KNLFCWNSIIEGLA H
Sbjct: 307 KEVHMYTLQNGFVLDVYIGSALVDMYSKCGSLERALLVFFNLPKKNLFCWNSIIEGLAAH 366

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           GFA EAL MF +M  E+V+PN VTF+SV +ACTHAGLV+EGRR + SM   YSI   VEH
Sbjct: 367 GFAQEALKMFAKMEMESVKPNAVTFVSVFTACTHAGLVDEGRRIYRSMIDDYSIVSNVEH 426

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YG MV L SKAGL+ +ALELI + +F+PNAVIWGALL GC++H+NL IA IA N+LM+LE
Sbjct: 427 YGGMVHLFSKAGLIYEALELIGNMEFEPNAVIWGALLDGCRIHKNLVIAEIAFNKLMVLE 486

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSGY  LL++MYAE +RW +V +IR  M+ELGIEK CPG+S I ++++ + FAA+DKS
Sbjct: 487 PMNSGYYFLLVSMYAEQNRWRDVAEIRGRMRELGIEKICPGTSSIRIDKRDHLFAAADKS 546

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPELE 328
           H ASDE+   L ++ +Q+ LA YV E E
Sbjct: 547 HSASDEVCLLLDEIYDQMGLAGYVQETE 574

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334182333|ref|NP_172105.4| uncharacterized basic helix-loop-helix protein [Arabidopsis thaliana] gi|8810477|gb|AAF80138.1|AC024174_20 Contains similarity to an unknown protein T5J8.5 gi|4263522 from Arabidopsis thaliana BAC T5J8 gb|AC004044 and contains multiple PPR PF|01535 repeats. ESTs gb|AV565358, gb|AV558710, gb|AV524184 come from this gene [Arabidopsis thaliana] gi|332189826|gb|AEE27947.1| uncharacterized basic helix-loop-helix protein [Arabidopsis thaliana]

 Score =  441 bits (1134), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 209/328 (63%), Positives = 263/328 (80%)

Query: 1    MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
            MP +DIISWTTMI  YSQNK++REA+  F +M   GI PD+VTM+TV+SACAHLG L++G
Sbjct: 992  MPVKDIISWTTMIKGYSQNKRYREAIAVFYKMMEEGIIPDEVTMSTVISACAHLGVLEIG 1051

Query: 61   REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
            +E+H+Y +Q GF +DVYIGSALVDMY+KCGSL+R+LLVFF L +KNLFCWNSIIEGLA H
Sbjct: 1052 KEVHMYTLQNGFVLDVYIGSALVDMYSKCGSLERALLVFFNLPKKNLFCWNSIIEGLAAH 1111

Query: 121  GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
            GFA EAL MF +M  E+V+PN VTF+SV +ACTHAGLV+EGRR + SM   YSI   VEH
Sbjct: 1112 GFAQEALKMFAKMEMESVKPNAVTFVSVFTACTHAGLVDEGRRIYRSMIDDYSIVSNVEH 1171

Query: 181  YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
            YG MV L SKAGL+ +ALELI + +F+PNAVIWGALL GC++H+NL IA IA N+LM+LE
Sbjct: 1172 YGGMVHLFSKAGLIYEALELIGNMEFEPNAVIWGALLDGCRIHKNLVIAEIAFNKLMVLE 1231

Query: 241  PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
            P NSGY  LL++MYAE +RW +V +IR  M+ELGIEK CPG+S I ++++ + FAA+DKS
Sbjct: 1232 PMNSGYYFLLVSMYAEQNRWRDVAEIRGRMRELGIEKICPGTSSIRIDKRDHLFAAADKS 1291

Query: 301  HPASDEIYSSLSKLDEQLKLASYVPELE 328
            H ASDE+   L ++ +Q+ LA YV E E
Sbjct: 1292 HSASDEVCLLLDEIYDQMGLAGYVQETE 1319

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|62321090|dbj|BAD94184.1| hypothetical protein [Arabidopsis thaliana]

 Score =  441 bits (1134), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 209/328 (63%), Positives = 263/328 (80%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +DIISWTTMI  YSQNK++REA+  F +M   GI PD+VTM+TV+SACAHLG L++G
Sbjct: 247 MPVKDIISWTTMIKGYSQNKRYREAIAVFYKMMEEGIIPDEVTMSTVISACAHLGVLEIG 306

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +E+H+Y +Q GF +DVYIGSALVDMY+KCGSL+R+LLVFF L +KNLFCWNSIIEGLA H
Sbjct: 307 KEVHMYTLQNGFVLDVYIGSALVDMYSKCGSLERALLVFFNLPKKNLFCWNSIIEGLAAH 366

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           GFA EAL MF +M  E+V+PN VTF+SV +ACTHAGLV+EGRR + SM   YSI   VEH
Sbjct: 367 GFAQEALKMFAKMEMESVKPNAVTFVSVFTACTHAGLVDEGRRIYRSMIDDYSIVSNVEH 426

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YG MV L SKAGL+ +ALELI + +F+PNAVIWGALL GC++H+NL IA IA N+LM+LE
Sbjct: 427 YGGMVHLFSKAGLIYEALELIGNMEFEPNAVIWGALLDGCRIHKNLVIAEIAFNKLMVLE 486

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P NSGY  LL++MYAE +RW +V +IR  M+ELGIEK CPG+S I ++++ + FAA+DKS
Sbjct: 487 PMNSGYYFLLVSMYAEQNRWRDVAEIRGRMRELGIEKICPGTSSIRIDKRDHLFAAADKS 546

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPELE 328
           H ASDE+   L ++ +Q+ LA YV E E
Sbjct: 547 HSASDEVCLLLDEIYDQMGLAGYVQETE 574

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142959|emb|CBI20254.3| unnamed protein product [Vitis vinifera]

 Score =  405 bits (1042), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 199/327 (60%), Positives = 248/327 (75%), Gaps = 8/327 (2%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           M  RD+ +WTTMI+ +++      A   F+EM       +  +   ++   + L  ++  
Sbjct: 171 MSERDVFAWTTMISVHARTGDMSSARQLFDEMP----VRNTASWNAMIDGYSRLRNVE-- 224

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
               L   Q+  + D+   + ++  Y++   LD+SL+VFFKLR+KNLFCWNSIIEGLAVH
Sbjct: 225 -SAELLFSQMP-NRDIISWTTMIACYSQNKHLDKSLVVFFKLRKKNLFCWNSIIEGLAVH 282

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G+A EALAMF RM  E ++PNGVTFISVL ACTHAGLVEEGR+RFLSM+  +SI PE+EH
Sbjct: 283 GYAEEALAMFSRMQREKIKPNGVTFISVLGACTHAGLVEEGRKRFLSMSRDFSIPPEIEH 342

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           YGCMVDLL KAGLLEDALEL+RS + +PN+VIWGALLGGCKLHRNL+IA +AVNE  +LE
Sbjct: 343 YGCMVDLLGKAGLLEDALELVRSMRMEPNSVIWGALLGGCKLHRNLKIAQVAVNESKVLE 402

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           PNNSGY TLL+NMYAEV+RW+EV  IR  MKELG+EK  PGSSWIEM+RK++QFAASDKS
Sbjct: 403 PNNSGYYTLLVNMYAEVNRWSEVANIRATMKELGVEKTSPGSSWIEMDRKIHQFAASDKS 462

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPEL 327
           H ASDEIY+ L +LD QLKL+ YVPEL
Sbjct: 463 HLASDEIYTLLVELDGQLKLSGYVPEL 489

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	331
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.990	0.550	0.427	3.4e-77
TAIR|locus:2130354	722	AT4G14820 "AT4G14820" [Arabido	0.987	0.452	0.457	1.1e-76
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.996	0.447	0.418	2.7e-75
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.996	0.422	0.419	1.9e-74
TAIR|locus:2102852	657	CRR2 "AT3G46790" [Arabidopsis	0.996	0.502	0.408	4e-74
TAIR|locus:2141171	857	AT4G21300 [Arabidopsis thalian	0.972	0.375	0.435	1.1e-73
TAIR|locus:2161018	530	AT5G56310 "AT5G56310" [Arabido	0.960	0.6	0.454	1.4e-73
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.978	0.501	0.436	3.6e-73
TAIR|locus:4010713895	595	AT4G21065 "AT4G21065" [Arabido	0.984	0.547	0.417	4.6e-73
TAIR|locus:2198546	760	AT1G20230 "AT1G20230" [Arabido	0.984	0.428	0.406	1.6e-72

TAIR|locus:2011892 AT1G50270 "AT1G50270" [Arabidopsis thaliana (taxid:3702)]

 Score = 777 (278.6 bits), Expect = 3.4e-77, P = 3.4e-77
 Identities = 141/330 (42%), Positives = 220/330 (66%)

Query:     1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
             MP+R++++WT +I  Y Q++ F + +  F EM  S ++P++ T+++VLSACAH+GAL  G
Sbjct:   266 MPSRNVVTWTALIAGYVQSRCFDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGALHRG 325

Query:    61 REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
             R +H Y+++   +I+   G+ L+D+Y KCG L+ ++LVF +L EKN++ W ++I G A H
Sbjct:   326 RRVHCYMIKNSIEINTTAGTTLIDLYVKCGCLEEAILVFERLHEKNVYTWTAMINGFAAH 385

Query:   121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
             G+A +A  +F  M+  +V PN VTF++VLSAC H GLVEEGRR FLSM   +++ P+ +H
Sbjct:   386 GYARDAFDLFYTMLSSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADH 445

Query:   181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
             Y CMVDL  + GLLE+A  LI     +P  V+WGAL G C LH++ E+   A + ++ L+
Sbjct:   446 YACMVDLFGRKGLLEEAKALIERMPMEPTNVVWGALFGSCLLHKDYELGKYAASRVIKLQ 505

Query:   241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
             P++SG  TLL N+Y+E   W EV ++R  MK+  + K  PG SWIE++ K+ +F A D  
Sbjct:   506 PSHSGRYTLLANLYSESQNWDEVARVRKQMKDQQVVKS-PGFSWIEVKGKLCEFIAFDDK 564

Query:   301 HPA-SDEIYSSLSKLDEQLKLASYVPELEA 329
              P  SD++Y +L  +  Q++L   + ++ A
Sbjct:   565 KPLESDDLYKTLDTVGVQMRLPDELEDVTA 594

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2130354 AT4G14820 "AT4G14820" [Arabidopsis thaliana (taxid:3702)]

 Score = 772 (276.8 bits), Expect = 1.1e-76, P = 1.1e-76
 Identities = 150/328 (45%), Positives = 217/328 (66%)

Query:     4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREI 63
             +D++ WTTMI+ Y ++   +EAL  F EM  SGI PD V+M +V+SACA+LG LD  + +
Sbjct:   307 KDLVCWTTMISAYVESDYPQEALRVFEEMCCSGIKPDVVSMFSVISACANLGILDKAKWV 366

Query:    64 HLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFA 123
             H  +   G + ++ I +AL++MYAKCG LD +  VF K+  +N+  W+S+I  L++HG A
Sbjct:   367 HSCIHVNGLESELSINNALINMYAKCGGLDATRDVFEKMPRRNVVSWSSMINALSMHGEA 426

Query:   124 HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGC 183
              +AL++F RM  ENVEPN VTF+ VL  C+H+GLVEEG++ F SMT  Y+ITP++EHYGC
Sbjct:   427 SDALSLFARMKQENVEPNEVTFVGVLYGCSHSGLVEEGKKIFASMTDEYNITPKLEHYGC 486

Query:   184 MVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN 243
             MVDL  +A LL +ALE+I S     N VIWG+L+  C++H  LE+   A   ++ LEP++
Sbjct:   487 MVDLFGRANLLREALEVIESMPVASNVVIWGSLMSACRIHGELELGKFAAKRILELEPDH 546

Query:   244 SGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPA 303
              G   L+ N+YA   RW +V  IR  M+E  + K   G S I+   K ++F   DK H  
Sbjct:   547 DGALVLMSNIYAREQRWEDVRNIRRVMEEKNVFKE-KGLSRIDQNGKSHEFLIGDKRHKQ 605

Query:   304 SDEIYSSLSKLDEQLKLASYVPELEAML 331
             S+EIY+ L ++  +LKLA YVP+  ++L
Sbjct:   606 SNEIYAKLDEVVSKLKLAGYVPDCGSVL 633

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

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

 Score = 759 (272.2 bits), Expect = 2.7e-75, P = 2.7e-75
 Identities = 139/332 (41%), Positives = 220/332 (66%)

Query:     1 MPARDIISWTTMITCYSQNKQFREALDAFNEMK-NSGISPDQVTMATVLSACAHLGALDL 59
             MP +DI++W  +I+ Y QN +  EAL  F+E++    +  +Q+T+ + LSACA +GAL+L
Sbjct:   324 MPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALEL 383

Query:    60 GREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAV 119
             GR IH Y+ + G  ++ ++ SAL+ MY+KCG L++S  VF  + ++++F W+++I GLA+
Sbjct:   384 GRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAM 443

Query:   120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE 179
             HG  +EA+ MF +M   NV+PNGVTF +V  AC+H GLV+E    F  M   Y I PE +
Sbjct:   444 HGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEK 503

Query:   180 HYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMIL 239
             HY C+VD+L ++G LE A++ I +    P+  +WGALLG CK+H NL +A +A   L+ L
Sbjct:   504 HYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHANLNLAEMACTRLLEL 563

Query:   240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDK 299
             EP N G   LL N+YA++ +W  V+++R  M+  G++K  PG S IE++  +++F + D 
Sbjct:   564 EPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKE-PGCSSIEIDGMIHEFLSGDN 622

Query:   300 SHPASDEIYSSLSKLDEQLKLASYVPELEAML 331
             +HP S+++Y  L ++ E+LK   Y PE+  +L
Sbjct:   623 AHPMSEKVYGKLHEVMEKLKSNGYEPEISQVL 654

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 751 (269.4 bits), Expect = 1.9e-74, P = 1.9e-74
 Identities = 139/331 (41%), Positives = 218/331 (65%)

Query:     1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
             MP RD +SW  MI  YSQ+    EAL  F +M+  G   ++ + ++ LS CA + AL+LG
Sbjct:   369 MPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELG 428

Query:    61 REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
             +++H  +++ G++   ++G+AL+ MY KCGS++ +  +F ++  K++  WN++I G + H
Sbjct:   429 KQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRH 488

Query:   121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
             GF   AL  F+ M  E ++P+  T ++VLSAC+H GLV++GR+ F +MT  Y + P  +H
Sbjct:   489 GFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQH 548

Query:   181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
             Y CMVDLL +AGLLEDA  L+++  F+P+A IWG LLG  ++H N E+A  A +++  +E
Sbjct:   549 YACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAME 608

Query:   241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
             P NSG   LL N+YA   RW +V K+RV M++ G+ K+ PG SWIE++ K + F+  D+ 
Sbjct:   609 PENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGV-KKVPGYSWIEIQNKTHTFSVGDEF 667

Query:   301 HPASDEIYSSLSKLDEQLKLASYVPELEAML 331
             HP  DEI++ L +LD ++K A YV +   +L
Sbjct:   668 HPEKDEIFAFLEELDLRMKKAGYVSKTSVVL 698

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2102852 CRR2 "AT3G46790" [Arabidopsis thaliana (taxid:3702)]

 Score = 748 (268.4 bits), Expect = 4.0e-74, P = 4.0e-74
 Identities = 136/333 (40%), Positives = 215/333 (64%)

Query:     1 MPARDIISWTTMITCYSQNKQFREALDAFNEM--KNSGISPDQVTMATVLSACAHLGALD 58
             MP R+++SW+ MI CY++N +  EAL  F EM  +    SP+ VTM +VL ACA L AL+
Sbjct:   243 MPVRNVVSWSAMIACYAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASLAALE 302

Query:    59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLA 118
              G+ IH Y+++ G D  + + SALV MY +CG L+    VF ++ ++++  WNS+I    
Sbjct:   303 QGKLIHGYILRRGLDSILPVISALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYG 362

Query:   119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEV 178
             VHG+  +A+ +F+ M+     P  VTF+SVL AC+H GLVEEG+R F +M   + I P++
Sbjct:   363 VHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQI 422

Query:   179 EHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI 238
             EHY CMVDLL +A  L++A ++++  + +P   +WG+LLG C++H N+E+A  A   L  
Sbjct:   423 EHYACMVDLLGRANRLDEAAKMVQDMRTEPGPKVWGSLLGSCRIHGNVELAERASRRLFA 482

Query:   239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASD 298
             LEP N+G   LL ++YAE   W EV +++  ++  G++K  PG  W+E+ RK+Y F + D
Sbjct:   483 LEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQK-LPGRCWMEVRRKMYSFVSVD 541

Query:   299 KSHPASDEIYSSLSKLDEQLKLASYVPELEAML 331
             + +P  ++I++ L KL E +K   Y+P+ + +L
Sbjct:   542 EFNPLMEQIHAFLVKLAEDMKEKGYIPQTKGVL 574

GO:0009507 "chloroplast" evidence=ISS

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0031426 "polycistronic mRNA processing" evidence=IMP

GO:0000398 "mRNA splicing, via spliceosome" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0030422 "production of siRNA involved in RNA interference" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2141171 AT4G21300 [Arabidopsis thaliana (taxid:3702)]

 Score = 744 (267.0 bits), Expect = 1.1e-73, P = 1.1e-73
 Identities = 141/324 (43%), Positives = 211/324 (65%)

Query:     4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREI 63
             RDI+SW +MIT  +Q+     A+D F +M  SGI  D V+++  LSACA+L +   G+ I
Sbjct:   505 RDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACANLPSESFGKAI 564

Query:    64 HLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFA 123
             H ++++     DVY  S L+DMYAKCG+L  ++ VF  ++EKN+  WNSII     HG  
Sbjct:   565 HGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTMKEKNIVSWNSIIAACGNHGKL 624

Query:   124 HEALAMFDRMIYEN-VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYG 182
              ++L +F  M+ ++ + P+ +TF+ ++S+C H G V+EG R F SMT  Y I P+ EHY 
Sbjct:   625 KDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQEHYA 684

Query:   183 CMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN 242
             C+VDL  +AG L +A E ++S  F P+A +WG LLG C+LH+N+E+A +A ++LM L+P+
Sbjct:   685 CVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRLHKNVELAEVASSKLMDLDPS 744

Query:   243 NSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHP 302
             NSGY  L+ N +A    W  VTK+R  MKE  ++K  PG SWIE+ ++ + F + D +HP
Sbjct:   745 NSGYYVLISNAHANAREWESVTKVRSLMKEREVQK-IPGYSWIEINKRTHLFVSGDVNHP 803

Query:   303 ASDEIYSSLSKLDEQLKLASYVPE 326
              S  IYS L+ L  +L+L  Y+P+
Sbjct:   804 ESSHIYSLLNSLLGELRLEGYIPQ 827

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 743 (266.6 bits), Expect = 1.4e-73, P = 1.4e-73
 Identities = 146/321 (45%), Positives = 213/321 (66%)

Query:     1 MPA--RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALD 58
             MP   R+ +SWT +I+ Y+++ +  EA++ F  M    + PD+VT+  VLSACA LG+L+
Sbjct:   208 MPCWVRNEVSWTCVISGYAKSGRASEAIEVFQRMLMENVEPDEVTLLAVLSACADLGSLE 267

Query:    59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLA 118
             LG  I  YV   G +  V + +A++DMYAK G++ ++L VF  + E+N+  W +II GLA
Sbjct:   268 LGERICSYVDHRGMNRAVSLNNAVIDMYAKSGNITKALDVFECVNERNVVTWTTIIAGLA 327

Query:   119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEV 178
              HG   EALAMF+RM+   V PN VTFI++LSAC+H G V+ G+R F SM   Y I P +
Sbjct:   328 THGHGAEALAMFNRMVKAGVRPNDVTFIAILSACSHVGWVDLGKRLFNSMRSKYGIHPNI 387

Query:   179 EHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI 238
             EHYGCM+DLL +AG L +A E+I+S  F+ NA IWG+LL    +H +LE+   A++EL+ 
Sbjct:   388 EHYGCMIDLLGRAGKLREADEVIKSMPFKANAAIWGSLLAASNVHHDLELGERALSELIK 447

Query:   239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASD 298
             LEPNNSG   LL N+Y+ + RW E   +R  MK +G++K   G S IE+E +VY+F + D
Sbjct:   448 LEPNNSGNYMLLANLYSNLGRWDESRMMRNMMKGIGVKKMA-GESSIEVENRVYKFISGD 506

Query:   299 KSHPASDEIYSSLSKLDEQLK 319
              +HP  + I+  L ++D Q++
Sbjct:   507 LTHPQVERIHEILQEMDLQIQ 527

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2154389 LPA66 "LOW PSII ACCUMULATION 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 739 (265.2 bits), Expect = 3.6e-73, P = 3.6e-73
 Identities = 142/325 (43%), Positives = 213/325 (65%)

Query:     1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
             M  R ++SW TMI+ YS N  F++A++ F EMK   I P+ VT+ +VL A + LG+L+LG
Sbjct:   234 MRQRSVVSWNTMISGYSLNGFFKDAVEVFREMKKGDIRPNYVTLVSVLPAISRLGSLELG 293

Query:    61 REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
               +HLY    G  ID  +GSAL+DMY+KCG +++++ VF +L  +N+  W+++I G A+H
Sbjct:   294 EWLHLYAEDSGIRIDDVLGSALIDMYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIH 353

Query:   121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
             G A +A+  F +M    V P+ V +I++L+AC+H GLVEEGRR F  M     + P +EH
Sbjct:   354 GQAGDAIDCFCKMRQAGVRPSDVAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEH 413

Query:   181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
             YGCMVDLL ++GLL++A E I +   +P+ VIW ALLG C++  N+E+     N LM + 
Sbjct:   414 YGCMVDLLGRSGLLDEAEEFILNMPIKPDDVIWKALLGACRMQGNVEMGKRVANILMDMV 473

Query:   241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
             P++SG    L NMYA    W+EV+++R+ MKE  I K  PG S I+++  +++F   D S
Sbjct:   474 PHDSGAYVALSNMYASQGNWSEVSEMRLRMKEKDIRKD-PGCSLIDIDGVLHEFVVEDDS 532

Query:   301 HPASDEIYSSLSKLDEQLKLASYVP 325
             HP + EI S L ++ ++L+LA Y P
Sbjct:   533 HPKAKEINSMLVEISDKLRLAGYRP 557

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:4010713895 AT4G21065 "AT4G21065" [Arabidopsis thaliana (taxid:3702)]

 Score = 738 (264.8 bits), Expect = 4.6e-73, P = 4.6e-73
 Identities = 137/328 (41%), Positives = 216/328 (65%)

Query:     1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
             MP +D+++W ++I  +++N +  EAL  + EM + GI PD  T+ ++LSACA +GAL LG
Sbjct:   182 MPEKDLVAWNSVINGFAENGKPEEALALYTEMNSKGIKPDGFTIVSLLSACAKIGALTLG 241

Query:    61 REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
             + +H+Y++++G   +++  + L+D+YA+CG ++ +  +F ++ +KN   W S+I GLAV+
Sbjct:   242 KRVHVYMIKVGLTRNLHSSNVLLDLYARCGRVEEAKTLFDEMVDKNSVSWTSLIVGLAVN 301

Query:   121 GFAHEALAMFDRM-IYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE 179
             GF  EA+ +F  M   E + P  +TF+ +L AC+H G+V+EG   F  M   Y I P +E
Sbjct:   302 GFGKEAIELFKYMESTEGLLPCEITFVGILYACSHCGMVKEGFEYFRRMREEYKIEPRIE 361

Query:   180 HYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMIL 239
             H+GCMVDLL++AG ++ A E I+S   QPN VIW  LLG C +H + ++A  A  +++ L
Sbjct:   362 HFGCMVDLLARAGQVKKAYEYIKSMPMQPNVVIWRTLLGACTVHGDSDLAEFARIQILQL 421

Query:   240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDK 299
             EPN+SG   LL NMYA   RW++V KIR  M   G+ K+ PG S +E+  +V++F   DK
Sbjct:   422 EPNHSGDYVLLSNMYASEQRWSDVQKIRKQMLRDGV-KKVPGHSLVEVGNRVHEFLMGDK 480

Query:   300 SHPASDEIYSSLSKLDEQLKLASYVPEL 327
             SHP SD IY+ L ++  +L+   YVP++
Sbjct:   481 SHPQSDAIYAKLKEMTGRLRSEGYVPQI 508

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2198546 AT1G20230 "AT1G20230" [Arabidopsis thaliana (taxid:3702)]

 Score = 733 (263.1 bits), Expect = 1.6e-72, P = 1.6e-72
 Identities = 133/327 (40%), Positives = 216/327 (66%)

Query:     5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIH 64
             +++SWT++I   +QN +  EAL+ F EM+ +G+ P+ VT+ ++L AC ++ AL  GR  H
Sbjct:   352 NVVSWTSIIAGCAQNGKDIEALELFREMQVAGVKPNHVTIPSMLPACGNIAALGHGRSTH 411

Query:    65 LYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAH 124
              + +++    +V++GSAL+DMYAKCG ++ S +VF  +  KNL CWNS++ G ++HG A 
Sbjct:   412 GFAVRVHLLDNVHVGSALIDMYAKCGRINLSQIVFNMMPTKNLVCWNSLMNGFSMHGKAK 471

Query:   125 EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCM 184
             E +++F+ ++   ++P+ ++F S+LSAC   GL +EG + F  M+  Y I P +EHY CM
Sbjct:   472 EVMSIFESLMRTRLKPDFISFTSLLSACGQVGLTDEGWKYFKMMSEEYGIKPRLEHYSCM 531

Query:   185 VDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS 244
             V+LL +AG L++A +LI+   F+P++ +WGALL  C+L  N+++A IA  +L  LEP N 
Sbjct:   532 VNLLGRAGKLQEAYDLIKEMPFEPDSCVWGALLNSCRLQNNVDLAEIAAEKLFHLEPENP 591

Query:   245 GYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPAS 304
             G   LL N+YA    W EV  IR  M+ LG++K  PG SWI+++ +VY   A DKSHP  
Sbjct:   592 GTYVLLSNIYAAKGMWTEVDSIRNKMESLGLKKN-PGCSWIQVKNRVYTLLAGDKSHPQI 650

Query:   305 DEIYSSLSKLDEQLKLASYVPELEAML 331
             D+I   + ++ ++++ + + P L+  L
Sbjct:   651 DQITEKMDEISKEMRKSGHRPNLDFAL 677

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	331
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-89
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-88
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-36
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-33
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-32
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-17
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-07
pfam01535	31	pfam01535, PPR, PPR repeat	8e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	9e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  283 bits (726), Expect = 6e-89
 Identities = 127/319 (39%), Positives = 195/319 (61%), Gaps = 3/319 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           +P +D+ISWT++I     N +  EAL  F +M  + + P+ VT+   LSACA +GAL  G
Sbjct: 450 IPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCG 508

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +EIH +V++ G   D ++ +AL+D+Y +CG +       F   EK++  WN ++ G   H
Sbjct: 509 KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRM-NYAWNQFNSHEKDVVSWNILLTGYVAH 567

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G    A+ +F+RM+   V P+ VTFIS+L AC+ +G+V +G   F SM   YSITP ++H
Sbjct: 568 GKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH 627

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           Y C+VDLL +AG L +A   I      P+  +WGALL  C++HR++E+  +A   +  L+
Sbjct: 628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELD 687

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           PN+ GY  LL N+YA+  +W EV ++R  M+E G+    PG SW+E++ KV+ F   D+S
Sbjct: 688 PNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD-PGCSWVEVKGKVHAFLTDDES 746

Query: 301 HPASDEIYSSLSKLDEQLK 319
           HP   EI + L    E++K
Sbjct: 747 HPQIKEINTVLEGFYEKMK 765

Length = 857

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

 Score =  277 bits (710), Expect = 7e-88
 Identities = 121/331 (36%), Positives = 198/331 (59%), Gaps = 1/331 (0%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP +  ++W +M+  Y+ +    EAL  + EM++SG+S DQ T + ++   + L  L+  
Sbjct: 285 MPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHA 344

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           ++ H  +++ GF +D+   +ALVD+Y+K G ++ +  VF ++  KNL  WN++I G   H
Sbjct: 345 KQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH 404

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH 180
           G   +A+ MF+RMI E V PN VTF++VLSAC ++GL E+G   F SM+  + I P   H
Sbjct: 405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH 464

Query: 181 YGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE 240
           Y CM++LL + GLL++A  +IR + F+P   +W ALL  C++H+NLE+  +A  +L  + 
Sbjct: 465 YACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG 524

Query: 241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKS 300
           P       +LLN+Y    R AE  K+   +K  G+    P  +WIE++++ + F + D+ 
Sbjct: 525 PEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH-PACTWIEVKKQDHSFFSGDRL 583

Query: 301 HPASDEIYSSLSKLDEQLKLASYVPELEAML 331
           HP S EIY  L +L +++    YV E   +L
Sbjct: 584 HPQSREIYQKLDELMKEISEYGYVAEENELL 614

Length = 697

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

 Score =  139 bits (351), Expect = 2e-36
 Identities = 80/253 (31%), Positives = 131/253 (51%), Gaps = 23/253 (9%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP RD ISW  MI+ Y +N +  E L+ F  M+   + PD +T+ +V+SAC  LG   LG
Sbjct: 248 MPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLG 307

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           RE+H YV++ GF +DV + ++L+ MY   GS   +  VF ++  K+   W ++I G   +
Sbjct: 308 REMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKN 367

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG--------RRRFLSMTCGY 172
           G   +AL  +  M  +NV P+ +T  SVLSAC   G ++ G        R+  +S    Y
Sbjct: 368 GLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLIS----Y 423

Query: 173 SITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQP--NAVIWGALLGGCKL-HRNLEIA 229
            +         ++++ SK   ++ ALE+       P  + + W +++ G +L +R  E  
Sbjct: 424 VVVAN-----ALIEMYSKCKCIDKALEVF---HNIPEKDVISWTSIIAGLRLNNRCFEAL 475

Query: 230 HIAVNELMILEPN 242
                 L+ L+PN
Sbjct: 476 IFFRQMLLTLKPN 488

Length = 857

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

 Score =  130 bits (328), Expect = 2e-33
 Identities = 71/224 (31%), Positives = 116/224 (51%), Gaps = 10/224 (4%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP RD+ SW  ++  Y++   F EAL  ++ M  +G+ PD  T   VL  C  +  L  G
Sbjct: 147 MPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARG 206

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           RE+H +V++ GF++DV + +AL+ MY KCG +  + LVF ++  ++   WN++I G   +
Sbjct: 207 REVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFEN 266

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP---- 176
           G   E L +F  M   +V+P+ +T  SV+SAC    L+  G  R      GY +      
Sbjct: 267 GECLEGLELFFTMRELSVDPDLMTITSVISAC---ELL--GDERLGREMHGYVVKTGFAV 321

Query: 177 EVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGC 220
           +V     ++ +    G   +A E + S     +AV W A++ G 
Sbjct: 322 DVSVCNSLIQMYLSLGSWGEA-EKVFSRMETKDAVSWTAMISGY 364

Length = 857

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

 Score =  127 bits (321), Expect = 1e-32
 Identities = 69/224 (30%), Positives = 114/224 (50%), Gaps = 4/224 (1%)

Query: 1   MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           MP R++ SW T+I        +REA   F EM   G   +  T   +L A A LG+   G
Sbjct: 184 MPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG 243

Query: 61  REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH 120
           +++H  V++ G   D ++  AL+DMY+KCG ++ +  VF  + EK    WNS++ G A+H
Sbjct: 244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALH 303

Query: 121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT-CGYSITPEVE 179
           G++ EAL ++  M    V  +  TF  ++   +   L+E  ++    +   G+ +  ++ 
Sbjct: 304 GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPL--DIV 361

Query: 180 HYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLH 223
               +VDL SK G +EDA  +      + N + W AL+ G   H
Sbjct: 362 ANTALVDLYSKWGRMEDARNVFDRMPRK-NLISWNALIAGYGNH 404

Length = 697

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

 Score = 81.8 bits (202), Expect = 4e-17
 Identities = 56/218 (25%), Positives = 97/218 (44%), Gaps = 29/218 (13%)

Query: 20  KQFREALDAFNEMK-NSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYI 78
            + REAL+ F  ++     +    T   ++ AC  L ++   + ++ +V   GF+ D Y+
Sbjct: 101 GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYM 160

Query: 79  GSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENV 138
            + ++ M+ KCG L  +  +F ++ E+NL  W +II GL   G   EA A+F  M  +  
Sbjct: 161 MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS 220

Query: 139 EPNGVTFISVLSACTHAGLVEEGRR-------------RFLSMTCGYSITPEVEHYGCMV 185
           +    TF+ +L A    G    G++              F+S  C             ++
Sbjct: 221 DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVS--CA------------LI 266

Query: 186 DLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLH 223
           D+ SK G +EDA  +      +   V W ++L G  LH
Sbjct: 267 DMYSKCGDIEDARCVFDGMP-EKTTVAWNSMLAGYALH 303

Length = 697

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

 Score = 75.7 bits (186), Expect = 5e-15
 Identities = 37/134 (27%), Positives = 66/134 (49%)

Query: 19  NKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYI 78
           + Q  +AL     M+   +  D+     +   C    A++ G  +    +     + V +
Sbjct: 64  HGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRL 123

Query: 79  GSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENV 138
           G+A++ M+ + G L  +  VF K+ E++LF WN ++ G A  G+  EAL ++ RM++  V
Sbjct: 124 GNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV 183

Query: 139 EPNGVTFISVLSAC 152
            P+  TF  VL  C
Sbjct: 184 RPDVYTFPCVLRTC 197

Length = 857

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

 Score = 59.7 bits (146), Expect = 5e-12
 Identities = 16/49 (32%), Positives = 27/49 (55%)

Query: 5  DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAH 53
          D++++ T+I  Y +  +  EAL  FNEMK  GI P+  T + ++     
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 58.0 bits (140), Expect = 3e-09
 Identities = 47/191 (24%), Positives = 85/191 (44%), Gaps = 10/191 (5%)

Query: 14  TCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFD 73
            C  Q +  +EA      ++N  +S    T   ++S CA    +D    +   V + G  
Sbjct: 415 ACKKQ-RAVKEAFRFAKLIRNPTLS----TFNMLMSVCASSQDIDGALRVLRLVQEAGLK 469

Query: 74  IDVYIGSALVDMYAKCGSLDRSLLVFFKLR----EKNLFCWNSIIEGLAVHGFAHEALAM 129
            D  + + L+   AK G +D    VF ++     E N+  + ++I+G A  G   +A   
Sbjct: 470 ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGA 529

Query: 130 FDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTC-GYSITPEVEHYGCMVDLL 188
           +  M  +NV+P+ V F +++SAC  +G V+        M    + I P+    G ++   
Sbjct: 530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 189 SKAGLLEDALE 199
           + AG ++ A E
Sbjct: 590 ANAGQVDRAKE 600

Length = 1060

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

 Score = 56.8 bits (137), Expect = 8e-09
 Identities = 54/252 (21%), Positives = 104/252 (41%), Gaps = 47/252 (18%)

Query: 13  ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGF 72
           +   SQ+     AL     ++ +G+  D     T++S CA  G +D   E+   ++  G 
Sbjct: 446 VCASSQD--IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGV 503

Query: 73  DIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNL----FCWNSIIEGLAVHGFAHEALA 128
           + +V+   AL+D  A+ G + ++   +  +R KN+      +N++I      G    A  
Sbjct: 504 EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFD 563

Query: 129 MFDRMIYEN--VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSI--TPEVE----- 179
           +   M  E   ++P+ +T  +++ AC +AG V+  +  +  +   Y+I  TPEV      
Sbjct: 564 VLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH-EYNIKGTPEVYTIAVN 622

Query: 180 --------HYGC--------------------MVDLLSKAGLLEDALELI---RSSKFQP 208
                    +                      +VD+   AG L+ A E++   R    + 
Sbjct: 623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682

Query: 209 NAVIWGALLGGC 220
             V + +L+G C
Sbjct: 683 GTVSYSSLMGAC 694

Length = 1060

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

 Score = 46.2 bits (111), Expect = 3e-07
 Identities = 12/48 (25%), Positives = 25/48 (52%)

Query: 105 KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC 152
            ++  +N++I+G    G   EAL +F+ M    ++PN  T+  ++   
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 45.9 bits (110), Expect = 3e-07
 Identities = 13/34 (38%), Positives = 20/34 (58%)

Query: 7  ISWTTMITCYSQNKQFREALDAFNEMKNSGISPD 40
          +++ T+I    +  +  EAL+ F EMK  GI PD
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 41.7 bits (99), Expect = 8e-06
 Identities = 10/31 (32%), Positives = 20/31 (64%)

Query: 7  ISWTTMITCYSQNKQFREALDAFNEMKNSGI 37
          +++ ++I+ Y +  +  EAL+ F EMK  G+
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 41.8 bits (98), Expect = 5e-04
 Identities = 15/49 (30%), Positives = 26/49 (53%)

Query: 12  MITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLG 60
           +IT   +  Q  +AL+  +EMK  G+ P+ +T + +L A       D+G
Sbjct: 725 LITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG 773

Length = 1060

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

 Score = 36.0 bits (84), Expect = 9e-04
 Identities = 8/34 (23%), Positives = 16/34 (47%)

Query: 6  IISWTTMITCYSQNKQFREALDAFNEMKNSGISP 39
          + ++  ++   ++      AL    EMK SG+ P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 34.0 bits (79), Expect = 0.004
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPN 141
             +N++I+GL   G   EAL +F  M    +EP+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 34.0 bits (79), Expect = 0.004
 Identities = 11/31 (35%), Positives = 15/31 (48%)

Query: 108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENV 138
             +NS+I G    G   EAL +F  M  + V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	331
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
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
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	99.89
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.85
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.8
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.77
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.77
KOG1126	638	consensus DNA-binding cell division cycle control	99.76
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.73
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.73
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.72
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.7
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.69
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.67
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.64
KOG1126	638	consensus DNA-binding cell division cycle control	99.63
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.62
PRK14574	822	hmsH outer membrane protein; Provisional	99.6
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.59
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.57
PRK14574	822	hmsH outer membrane protein; Provisional	99.56
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.56
PRK12370	553	invasion protein regulator; Provisional	99.56
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.55
PF13041	50	PPR_2: PPR repeat family	99.54
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.53
KOG2003	840	consensus TPR repeat-containing protein [General f	99.52
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.51
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.51
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.5
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.5
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.49
KOG1129	478	consensus TPR repeat-containing protein [General f	99.49
KOG2076	895	consensus RNA polymerase III transcription factor	99.49
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.45
PF13041	50	PPR_2: PPR repeat family	99.44
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.44
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.43
PRK12370	553	invasion protein regulator; Provisional	99.43
KOG1129	478	consensus TPR repeat-containing protein [General f	99.43
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.42
KOG2076	895	consensus RNA polymerase III transcription factor	99.41
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.41
PRK11189	296	lipoprotein NlpI; Provisional	99.37
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.37
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.37
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.36
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.35
PRK11189	296	lipoprotein NlpI; Provisional	99.35
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.34
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.33
KOG2003	840	consensus TPR repeat-containing protein [General f	99.31
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.29
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.28
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.26
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.24
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.21
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.18
KOG1125	579	consensus TPR repeat-containing protein [General f	99.18
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.11
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.1
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.09
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.08
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.06
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.99
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.99
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.98
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.97
KOG1125	579	consensus TPR repeat-containing protein [General f	98.96
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.95
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.94
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.92
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.87
PLN02789	320	farnesyltranstransferase	98.87
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.86
PRK15359	144	type III secretion system chaperone protein SscB;	98.86
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.86
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.85
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.85
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.84
PF12854	34	PPR_1: PPR repeat	98.83
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.82
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.81
PF12854	34	PPR_1: PPR repeat	98.81
PRK04841	903	transcriptional regulator MalT; Provisional	98.78
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.74
PLN02789	320	farnesyltranstransferase	98.73
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.73
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.71
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.7
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.7
PRK15359	144	type III secretion system chaperone protein SscB;	98.69
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.66
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.65
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.64
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.63
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.62
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.62
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.59
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.58
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.57
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.57
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.54
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.53
PRK04841	903	transcriptional regulator MalT; Provisional	98.53
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.51
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.51
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.51
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.5
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.48
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.46
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.46
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.41
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.4
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.39
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.39
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.39
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.38
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.37
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.35
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.31
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.31
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.31
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.29
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.29
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.28
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.28
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.27
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.27
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.26
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	98.23
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.21
KOG0553	304	consensus TPR repeat-containing protein [General f	98.21
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.18
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.18
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.17
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.16
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.16
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.16
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.12
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.11
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.1
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.1
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.09
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.08
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.07
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.06
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.05
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.05
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.04
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.04
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.03
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.03
KOG0553	304	consensus TPR repeat-containing protein [General f	98.03
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.02
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.0
PF12688	120	TPR_5: Tetratrico peptide repeat	97.99
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.99
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.97
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.97
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.96
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.96
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.9
PF13371	73	TPR_9: Tetratricopeptide repeat	97.88
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.87
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.83
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.82
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.81
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.8
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.78
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.77
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.76
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.72
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.72
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.68
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.64
PF12688	120	TPR_5: Tetratrico peptide repeat	97.64
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.56
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.55
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.54
PRK10803	263	tol-pal system protein YbgF; Provisional	97.5
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.5
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.49
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.48
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.48
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.47
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.42
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.4
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.38
PRK15331	165	chaperone protein SicA; Provisional	97.36
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.34
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.32
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.31
PF13431	34	TPR_17: Tetratricopeptide repeat	97.29
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.24
PF13428	44	TPR_14: Tetratricopeptide repeat	97.22
KOG1585	308	consensus Protein required for fusion of vesicles	97.19
PRK10803	263	tol-pal system protein YbgF; Provisional	97.18
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.13
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.1
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.05
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.04
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.97
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.96
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.96
KOG3941	406	consensus Intermediate in Toll signal transduction	96.94
PF13371	73	TPR_9: Tetratricopeptide repeat	96.93
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.87
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.8
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.78
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.72
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.71
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.7
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.68
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.64
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.62
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.57
PRK15331	165	chaperone protein SicA; Provisional	96.56
PF13428	44	TPR_14: Tetratricopeptide repeat	96.55
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.5
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.41
PF13512	142	TPR_18: Tetratricopeptide repeat	96.28
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.26
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.18
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.13
KOG3941	406	consensus Intermediate in Toll signal transduction	96.09
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.09
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.01
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.97
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.96
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.95
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.91
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.83
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.78
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.76
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.72
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.7
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.7
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.67
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.67
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.66
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.63
PRK11906	458	transcriptional regulator; Provisional	95.61
KOG4555	175	consensus TPR repeat-containing protein [Function	95.58
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.51
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.35
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.17
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.13
KOG4555	175	consensus TPR repeat-containing protein [Function	94.99
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.84
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.84
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.79
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.74
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.71
KOG1585	308	consensus Protein required for fusion of vesicles	94.7
PRK11906	458	transcriptional regulator; Provisional	94.66
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.63
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.61
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.6
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.57
KOG3364	149	consensus Membrane protein involved in organellar	94.48
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	94.44
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.43
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.36
PF13512	142	TPR_18: Tetratricopeptide repeat	94.36
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.28
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.08
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.07
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.06
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.05
KOG4234	271	consensus TPR repeat-containing protein [General f	94.03
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.0
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.95
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.93
KOG1586	288	consensus Protein required for fusion of vesicles	93.92
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.88
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.78
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.76
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.71
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.69
KOG1258	577	consensus mRNA processing protein [RNA processing	93.68
PF13431	34	TPR_17: Tetratricopeptide repeat	93.44
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.31
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.18
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.16
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.99
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.89
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.72
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.36
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.26
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	92.22
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.1
KOG1258	577	consensus mRNA processing protein [RNA processing	91.91
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.74
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.52
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.51
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.42
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.38
COG3947	361	Response regulator containing CheY-like receiver a	91.17
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	90.98
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.91
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.35
KOG4234	271	consensus TPR repeat-containing protein [General f	90.34
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.16
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.08
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.94
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.88
COG5159	421	RPN6 26S proteasome regulatory complex component [	89.75
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.61
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.6
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.51
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	89.29
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	89.29
PRK10941	269	hypothetical protein; Provisional	89.29
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.24
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.83
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	88.72
COG1747	711	Uncharacterized N-terminal domain of the transcrip	88.44
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	88.21
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	88.13
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.08
PRK11619	644	lytic murein transglycosylase; Provisional	87.89
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.76
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.54
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	87.19
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.15
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	86.87
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	85.94
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	85.63
PF09477	116	Type_III_YscG: Bacterial type II secretion system	85.45
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	85.27
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	84.77
PF13929	292	mRNA_stabil: mRNA stabilisation	84.15
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	83.97
KOG2300	629	consensus Uncharacterized conserved protein [Funct	83.76
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.72
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	83.34
PRK09687	280	putative lyase; Provisional	83.2
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.19
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	82.56
PF13929	292	mRNA_stabil: mRNA stabilisation	82.42
PRK09687	280	putative lyase; Provisional	82.4
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	82.23
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	82.1
COG3947	361	Response regulator containing CheY-like receiver a	82.07
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	81.62
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	81.45
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.33
KOG1550	552	consensus Extracellular protein SEL-1 and related	81.12
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	81.03
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	81.0

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

Probab=100.00  E-value=1.1e-57  Score=418.74  Aligned_cols=330  Identities=37%  Similarity=0.695  Sum_probs=323.6

Q ss_pred             CCCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         1 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      |++||+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|++|+..+++
T Consensus       285 m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~  364 (697)
T PLN03081        285 MPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANT  364 (697)
T ss_pred             CCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehH
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      +|+++|++.|++++|.++|++|.++|+.+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|..++
T Consensus       365 ~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~  444 (697)
T PLN03081        365 ALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQ  444 (697)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      |.++|+.|.+.+++.|+..+|+.++++|++.|++++|.++++++++.|+..+|++|+.+|...|+++.|..+++++.+..
T Consensus       445 a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~  524 (697)
T PLN03081        445 GWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG  524 (697)
T ss_pred             HHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCC
Confidence            99999999977899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      |++...|..|+.+|.+.|++++|.+++++|.+.|+.+. |+++|++....++.|..++..||...+++..|..+...|++
T Consensus       525 p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~-~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~  603 (697)
T PLN03081        525 PEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH-PACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISE  603 (697)
T ss_pred             CCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccC-CCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999 99999999999999999999999999999999999999999


Q ss_pred             cCccCcccccC
Q 043124          321 ASYVPELEAML  331 (331)
Q Consensus       321 ~g~~p~~~~~l  331 (331)
                      .||.||+..++
T Consensus       604 ~gy~~~~~~~~  614 (697)
T PLN03081        604 YGYVAEENELL  614 (697)
T ss_pred             cCCCCCcchhh
Confidence            99999987653

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.7e-53  Score=399.49  Aligned_cols=328  Identities=39%  Similarity=0.756  Sum_probs=319.4

Q ss_pred             CCCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         1 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      |+.||+++||++|.+|++.|+.++|+.+|++|.. +++||..||+.++.+|++.|+.+.+.+++..+.+.|+.++..+++
T Consensus       450 m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~n  528 (857)
T PLN03077        450 IPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPN  528 (857)
T ss_pred             CCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceech
Confidence            5678999999999999999999999999999986 589999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      +|+++|++.|++++|.++|+.+ .+|..+||++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++
T Consensus       529 aLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~e  607 (857)
T PLN03077        529 ALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQ  607 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHH
Confidence            9999999999999999999999 899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      |.++|+.|.+.+++.|+..+|+.++.+|++.|++++|.+++++|+++||..+|++|+.+|...++.+.++...+++.++.
T Consensus       608 a~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~  687 (857)
T PLN03077        608 GLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELD  687 (857)
T ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhC
Confidence            99999999978899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      |++...|..|...|...|+|++|.++.+.|++.|+.++ |+++||+.+.+++.|..++..||...+++..|..+...|++
T Consensus       688 p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~-~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~  766 (857)
T PLN03077        688 PNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD-PGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKA  766 (857)
T ss_pred             CCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCC-CCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999 99999999999999999999999999999999999999999


Q ss_pred             cCccCcccccC
Q 043124          321 ASYVPELEAML  331 (331)
Q Consensus       321 ~g~~p~~~~~l  331 (331)
                      .||.||+..++
T Consensus       767 ~g~~~~~~~~~  777 (857)
T PLN03077        767 SGLAGSESSSM  777 (857)
T ss_pred             CCcCCCcchhc
Confidence            99999987653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1e-47  Score=356.64  Aligned_cols=273  Identities=22%  Similarity=0.281  Sum_probs=173.1

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHH--hCCCCchhHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQ--IGFDIDVYIGSA   81 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~   81 (331)
                      ||..+||+||.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+  .|+.||..+|++
T Consensus       505 PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTyna  584 (1060)
T PLN03218        505 ANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGA  584 (1060)
T ss_pred             CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHH
Confidence            555555555555555555555555555555555555555555555555555555555555555544  345555555555


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCC----CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLRE----KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGL  157 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  157 (331)
                      ++.+|++.|++++|.++|+.|.+    ++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|+
T Consensus       585 LI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~  664 (1060)
T PLN03218        585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD  664 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            55555555555556555555543    24456666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCcHHHHHHHHHHHhhcCCHHHHHHHHH
Q 043124          158 VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS---KFQPNAVIWGALLGGCKLHRNLEIAHIAVN  234 (331)
Q Consensus       158 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  234 (331)
                      +++|.++|+.|. +.|+.|+..+|+.||.+|++.|++++|.++|++|   ++.||..+|+.+|.+|++.|++++|.++|+
T Consensus       665 ~eeA~~l~~eM~-k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~  743 (1060)
T PLN03218        665 LDKAFEILQDAR-KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLS  743 (1060)
T ss_pred             HHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            666666666666 4566666666666666666667777776666654   356677777777777777777777777777


Q ss_pred             HHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          235 ELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       235 ~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +|..  ..|+ ..+|..++.+|.+.|++++|.+++++|.+.|+.|+
T Consensus       744 eM~~~Gi~Pd-~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd  788 (1060)
T PLN03218        744 EMKRLGLCPN-TITYSILLVASERKDDADVGLDLLSQAKEDGIKPN  788 (1060)
T ss_pred             HHHHcCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            7665  3354 55556677777777777777777777777777666

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.8e-47  Score=353.84  Aligned_cols=273  Identities=18%  Similarity=0.326  Sum_probs=143.9

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      ||..+||+||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++
T Consensus       470 pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI  549 (1060)
T PLN03218        470 ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALI  549 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            45555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHhhCCHHHHHHHHhhcC------CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc
Q 043124           84 DMYAKCGSLDRSLLVFFKLR------EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGL  157 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  157 (331)
                      .+|++.|++++|.++|++|.      .||..+|+++|.+|++.|++++|.++|++|.+.|++|+..+|+.+|.+|++.|+
T Consensus       550 ~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~  629 (1060)
T PLN03218        550 SACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGD  629 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Confidence            55555555555555555542      234455555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCcHHHHHHHHHHHhhcCCHHHHHHHHH
Q 043124          158 VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS---KFQPNAVIWGALLGGCKLHRNLEIAHIAVN  234 (331)
Q Consensus       158 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  234 (331)
                      +++|..+|++|. ..|+.||..+|+.++.+|++.|++++|.+++++|   ++.||..+|+.||.+|++.|++++|.++|+
T Consensus       630 ~deAl~lf~eM~-~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~  708 (1060)
T PLN03218        630 WDFALSIYDDMK-KKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE  708 (1060)
T ss_pred             HHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            555555555555 3455555555555555555555555555555443   344555555555555555555555555555


Q ss_pred             HHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          235 ELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       235 ~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +|.+  ..|+ ...|+.|+.+|++.|++++|.++|++|.+.|+.|+
T Consensus       709 eM~~~g~~Pd-vvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        709 DIKSIKLRPT-VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             HHHHcCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            5544  2333 44455555555555555555555555555555555

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

Probab=100.00  E-value=2.4e-45  Score=337.20  Aligned_cols=275  Identities=28%  Similarity=0.454  Sum_probs=262.7

Q ss_pred             CCCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         1 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      |+.||+++||+||.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|+..|+.+.+.+++..+.+.|+.||..+++
T Consensus       184 m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n  263 (697)
T PLN03081        184 MPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSC  263 (697)
T ss_pred             CCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHH
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      +|+++|++.|++++|.++|++|.++|+.+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++
T Consensus       264 ~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~  343 (697)
T PLN03081        264 ALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEH  343 (697)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh--
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI--  238 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  238 (331)
                      |.+++..|. +.|+.|+..+|+.|+.+|++.|++++|.++|++|. .||..+|+.+|.+|++.|+.++|.++|++|.+  
T Consensus       344 a~~i~~~m~-~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g  421 (697)
T PLN03081        344 AKQAHAGLI-RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG  421 (697)
T ss_pred             HHHHHHHHH-HhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999 77999999999999999999999999999999996 68999999999999999999999999999987  


Q ss_pred             cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh-cCCCCC
Q 043124          239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE-LGIEKR  278 (331)
Q Consensus       239 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~~~  278 (331)
                      ..|+ ..+|..++.+|.+.|+.++|.++|+.|.+ .|+.|+
T Consensus       422 ~~Pd-~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~  461 (697)
T PLN03081        422 VAPN-HVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPR  461 (697)
T ss_pred             CCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC
Confidence            5577 66679999999999999999999999975 588887

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.4e-45  Score=343.53  Aligned_cols=276  Identities=30%  Similarity=0.529  Sum_probs=260.6

Q ss_pred             CCCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            1 MPARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         1 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      |+.||+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|+
T Consensus       248 m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n  327 (857)
T PLN03077        248 MPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCN  327 (857)
T ss_pred             CCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHH
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      +|+.+|++.|++++|.++|++|.++|..+|+.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.
T Consensus       328 ~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~  407 (857)
T PLN03077        328 SLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV  407 (857)
T ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh-c
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI-L  239 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~  239 (331)
                      |.++++.+. +.|+.|+..+|+.|+.+|++.|++++|.++|++|. .+|..+|+.+|.+|.+.|+.++|..+|++|.. .
T Consensus       408 a~~l~~~~~-~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~-~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~  485 (857)
T PLN03077        408 GVKLHELAE-RKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL  485 (857)
T ss_pred             HHHHHHHHH-HhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            999999999 78999999999999999999999999999999987 67888888888888888888888888888865 2


Q ss_pred             CCC----------------------------------------------------------------CcchHHHHHHHHH
Q 043124          240 EPN----------------------------------------------------------------NSGYCTLLLNMYA  255 (331)
Q Consensus       240 ~p~----------------------------------------------------------------~~~~~~~l~~~~~  255 (331)
                      .|+                                                                +...|+.++.+|.
T Consensus       486 ~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~  565 (857)
T PLN03077        486 KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYV  565 (857)
T ss_pred             CCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHH
Confidence            333                                                                2445788899999


Q ss_pred             hcCCchHHHHHHHHHHhcCCCCC
Q 043124          256 EVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +.|+.++|.++|++|.+.|+.|+
T Consensus       566 ~~G~~~~A~~lf~~M~~~g~~Pd  588 (857)
T PLN03077        566 AHGKGSMAVELFNRMVESGVNPD  588 (857)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999998

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=1e-22  Score=176.15  Aligned_cols=287  Identities=13%  Similarity=0.090  Sum_probs=229.7

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPD---QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      .+..+|..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++.|..+|+++.+.. +.+..++.
T Consensus        67 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~  145 (389)
T PRK11788         67 ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQ  145 (389)
T ss_pred             ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHH
Confidence            4566888899999999999999999999887542222   2467788889999999999999999998763 45678889


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCCC--------hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREKN--------LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      .++.++.+.|++++|.+.++.+.+.+        ...+..++..+.+.|++++|.+.|+++.+.. +.+...+..+...+
T Consensus       146 ~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  224 (389)
T PRK11788        146 QLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLA  224 (389)
T ss_pred             HHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHH
Confidence            99999999999999999999886432        1245667778889999999999999998764 44566777888999


Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~  231 (331)
                      .+.|++++|..+|+++.+. +......+++.++.+|...|++++|...++++ ...|+...+..++..+.+.|++++|..
T Consensus       225 ~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~  303 (389)
T PRK11788        225 LAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQA  303 (389)
T ss_pred             HHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHH
Confidence            9999999999999999832 21222456788899999999999999999874 356777777888888999999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHh---cCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEee
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYAE---VSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFA  295 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~  295 (331)
                      +++++++..|++.. +..++..+..   .|+.+++..++++|.+.++.++ |.+...+.+.....+.
T Consensus       304 ~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~-p~~~c~~cg~~~~~~~  368 (389)
T PRK11788        304 LLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRK-PRYRCRNCGFTARTLY  368 (389)
T ss_pred             HHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCC-CCEECCCCCCCCccce
Confidence            99999999998664 4556655553   5689999999999999999999 8877666665554443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=1.2e-20  Score=163.26  Aligned_cols=258  Identities=14%  Similarity=0.060  Sum_probs=215.3

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHh
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID---VYIGSALVDMYAK   88 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~   88 (331)
                      ....+...|++++|...|.++.+.+ +.+..++..+...+...|++++|..+++.+.+.+..++   ...+..++..|.+
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            3455678899999999999999874 34667889999999999999999999999987542221   2567888999999


Q ss_pred             hCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc----HHHHHHHHHHHhccCcHHHH
Q 043124           89 CGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPN----GVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a  161 (331)
                      .|++++|+.+|+++.+   .+..+++.++..+.+.|++++|.+.++++.+.+..+.    ...+..+...+...|++++|
T Consensus       120 ~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            9999999999999976   3567899999999999999999999999988753332    22455677788899999999


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCc--HHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-FQPN--AVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      ...|+++.+..  +.+...+..+...+.+.|++++|.+.++++. ..|+  ..++..++.+|...|++++|...++++.+
T Consensus       200 ~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        200 RALLKKALAAD--PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHhHC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999998322  3346677888899999999999999999854 3454  45678888999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       239 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..|+.. .+..++..+.+.|++++|..+++++.+.
T Consensus       278 ~~p~~~-~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        278 EYPGAD-LLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             hCCCch-HHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999864 4588999999999999999999998865

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

Probab=99.89  E-value=4.1e-20  Score=176.37  Aligned_cols=265  Identities=14%  Similarity=0.056  Sum_probs=190.1

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +..++..+...+.+.|++++|...|+++.+.+ +.+...+..++..+...|++++|..+++.+.+.. +.+..+|..+..
T Consensus       532 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  609 (899)
T TIGR02917       532 NLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGR  609 (899)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            44556666666666666666666666665543 3344555566666666677777777776666543 445666777777


Q ss_pred             HHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      ++...|++++|...|+++.+   .+...+..++.++...|++++|...|+++.+.. +.+..++..++..+...|++++|
T Consensus       610 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  688 (899)
T TIGR02917       610 AQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESA  688 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777776643   245567777777777777777777777777653 44566777777777777777788


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      ..+++.+....  +.+...+..+...+...|++++|.+.++++ ...|+..++..+..++...|++++|.+.++++++..
T Consensus       689 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  766 (899)
T TIGR02917       689 KKIAKSLQKQH--PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH  766 (899)
T ss_pred             HHHHHHHHhhC--cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            77777777332  445667777778888888888888888764 355666777778888888888888888888888888


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      |++...+..++..|...|++++|...|+++.+..
T Consensus       767 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  800 (899)
T TIGR02917       767 PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA  800 (899)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence            8888888888888888899999999998888654

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=99.89  E-value=7.9e-20  Score=174.38  Aligned_cols=307  Identities=13%  Similarity=0.083  Sum_probs=218.7

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      .+...+..++..+...|++++|..+++++.+.. +.+...|..+..++...|++++|...++.+.+.. +.+...+..+.
T Consensus       565 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  642 (899)
T TIGR02917       565 QEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLA  642 (899)
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            456677788888888888888888888887753 4567788888888888888888888888887764 44666777888


Q ss_pred             HHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      .++.+.|++++|..+|+++.+.   +..++..++..+...|++++|.++++.+.+.+ +.+...+..+...+...|++++
T Consensus       643 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       643 DAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHH
Confidence            8888888888888888877542   45678888888888888888888888887764 5566677777778888888888


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-K-FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      |...|+.+...   .|+..++..+..++.+.|++++|.+.+++. . ...+...+..+...|...|++++|...|+++.+
T Consensus       722 A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       722 AIQAYRKALKR---APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHHHhh---CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            88888887732   344466667777888888888888777763 2 233566777777777788888888888888888


Q ss_pred             cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccc----eE--EeCCE---EEEeecCCCCCCCchHHHH
Q 043124          239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSS----WI--EMERK---VYQFAASDKSHPASDEIYS  309 (331)
Q Consensus       239 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~----~~--~~~~~---~~~~~~~~~~~p~~~~~~~  309 (331)
                      ..|+++..+..++..+...|+ ++|+.++++..+..  |+.+...    .+  ..+..   ...+...-...|.++.++.
T Consensus       799 ~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  875 (899)
T TIGR02917       799 KAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA--PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRY  875 (899)
T ss_pred             hCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHH
Confidence            778777777778888888887 77888887776542  2211110    00  00000   0000000155677888888


Q ss_pred             HHHHHHHHHH
Q 043124          310 SLSKLDEQLK  319 (331)
Q Consensus       310 ~l~~l~~~~~  319 (331)
                      .+..++...+
T Consensus       876 ~l~~~~~~~g  885 (899)
T TIGR02917       876 HLALALLATG  885 (899)
T ss_pred             HHHHHHHHcC
Confidence            8888766543

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=99.85  E-value=9.8e-18  Score=152.65  Aligned_cols=264  Identities=8%  Similarity=-0.088  Sum_probs=204.5

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ...+..++.++...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..++.+
T Consensus        76 ~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~  153 (656)
T PRK15174         76 RDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRT  153 (656)
T ss_pred             hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3445556677778899999999999988864 3456677888888888999999999999888874 4467778888888


Q ss_pred             HHhhCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           86 YAKCGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      +...|++++|...++.+..  | +...+..+ ..+...|++++|...++.+.+....++......+...+...|++++|+
T Consensus       154 l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~  232 (656)
T PRK15174        154 LVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAI  232 (656)
T ss_pred             HHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHH
Confidence            9999999999988876642  3 33334333 347788999999999988877643344445555667788889999999


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHH----HHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLED----ALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNEL  236 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  236 (331)
                      ..++.+....  +.+...+..+...+...|++++    |...+++. ...|+ ...+..+...+...|++++|...++++
T Consensus       233 ~~~~~al~~~--p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~a  310 (656)
T PRK15174        233 QTGESALARG--LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQS  310 (656)
T ss_pred             HHHHHHHhcC--CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999988332  3456777788888899999885    77888763 35564 667778888888999999999999999


Q ss_pred             HhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          237 MILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       237 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      +...|++...+..+..++.+.|++++|...++++.+.+
T Consensus       311 l~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        311 LATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             HHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            99999988888888999999999999999998887653

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

Probab=99.85  E-value=6.1e-19  Score=149.31  Aligned_cols=307  Identities=12%  Similarity=0.125  Sum_probs=220.9

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc----------
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID----------   75 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------   75 (331)
                      ..+|+.+.+.+-..|+++.|+.+|+.+.+.. +.....|..+..++...|+.+.|.+.|.+.++.+  |+          
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhH
Confidence            4578889999999999999999999998864 3366788888888888888888888887777653  22          


Q ss_pred             -------------------------hhHHHHHHHHHHhhCCHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHH
Q 043124           76 -------------------------VYIGSALVDMYAKCGSLDRSLLVFFKLREKNL---FCWNSIIEGLAVHGFAHEAL  127 (331)
Q Consensus        76 -------------------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~  127 (331)
                                               ..+|+.|...+...|++..|+..|++..+-|+   .+|-.|...|...+.+++|.
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Av  272 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAV  272 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHH
Confidence                                     22344444445555555555555555544332   35666677777777777777


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHh-CC
Q 043124          128 AMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRS-SK  205 (331)
Q Consensus       128 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~-~~  205 (331)
                      ..|.+..... +-....+..+...|..+|.+|.|+..|++..+   +.|+ ...|+.|..++-..|+..+|.+.+.+ +.
T Consensus       273 s~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~---~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  273 SCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALE---LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHh---cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            7776666542 23355666666667778899999999998882   3555 67899999999999999999999986 44


Q ss_pred             CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccce
Q 043124          206 FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSW  284 (331)
Q Consensus       206 ~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  284 (331)
                      ..|+ ....+.|..++...|.++.|.++|..++++.|.-...++.|...|..+|++++|+..+++..  .+.|. -+-..
T Consensus       349 l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal--rI~P~-fAda~  425 (966)
T KOG4626|consen  349 LCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL--RIKPT-FADAL  425 (966)
T ss_pred             hCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH--hcCch-HHHHH
Confidence            5565 67788899999999999999999999999999988889999999999999999999999887  35565 22222


Q ss_pred             EEeCCEEEEe----------ecCCCCCCCchHHHHHHHHHHHHHHhcCccC
Q 043124          285 IEMERKVYQF----------AASDKSHPASDEIYSSLSKLDEQLKLASYVP  325 (331)
Q Consensus       285 ~~~~~~~~~~----------~~~~~~~p~~~~~~~~l~~l~~~~~~~g~~p  325 (331)
                      ...+....+.          .-.-..+|...++...|+.+|+   +.|.+|
T Consensus       426 ~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~k---DsGni~  473 (966)
T KOG4626|consen  426 SNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYK---DSGNIP  473 (966)
T ss_pred             HhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhh---ccCCcH
Confidence            2222221110          0011678888888888888765   555544

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

Probab=99.84  E-value=7.7e-19  Score=148.70  Aligned_cols=264  Identities=14%  Similarity=0.186  Sum_probs=222.1

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      +.|+.|...+-.+|+...|++.|++..+.. +.=...|-.|.+.|...+.+++|...+..+.... +....++..+...|
T Consensus       219 iawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iY  296 (966)
T KOG4626|consen  219 IAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIY  296 (966)
T ss_pred             eeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEE
Confidence            568888888989999999999999888753 2235688889999999999999999988887763 34567888888889


Q ss_pred             HhhCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKN---LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRR  163 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  163 (331)
                      ...|.+|-|+..|++..+.+   ..+|+.|..++-..|+..+|.+.|++.+... +.-..+.+.|...+...|.+++|..
T Consensus       297 yeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~  375 (966)
T KOG4626|consen  297 YEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATR  375 (966)
T ss_pred             eccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHH
Confidence            99999999999999887543   4689999999999999999999999988863 3346778889999999999999999


Q ss_pred             HHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          164 RFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       164 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      +|....   .+.|. ....+.|...|-..|++++|+..+++ +.+.|+ ...++.+...|-..|+.+.|...+.+++..+
T Consensus       376 ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~n  452 (966)
T KOG4626|consen  376 LYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQIN  452 (966)
T ss_pred             HHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcC
Confidence            999887   33555 56778899999999999999999987 567887 6788888888999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      |.-..++..|...|...|+..+|++-+++...  ++|+
T Consensus       453 Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPD  488 (966)
T KOG4626|consen  453 PTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPD  488 (966)
T ss_pred             cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCC
Confidence            99899999999999999999999999998874  4555

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=3.6e-17  Score=149.01  Aligned_cols=260  Identities=9%  Similarity=-0.030  Sum_probs=214.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      .-.++..+.+.|++++|+.+++........ +...+..++.+....|+++.|...++++.+.. +.+...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            345677888999999999999999987533 45566667777888999999999999999985 4567788899999999


Q ss_pred             hCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           89 CGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      .|++++|...|++..+  | +...+..++..+...|++++|...++.+..... .+...+..+ ..+...|++++|...+
T Consensus       123 ~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        123 SKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDHDLA  200 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHHHHH
Confidence            9999999999998865  3 566889999999999999999999998877642 333344333 3478899999999999


Q ss_pred             HhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHH----HHHHHHHHHhc
Q 043124          166 LSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEI----AHIAVNELMIL  239 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~  239 (331)
                      +.+.+. ...++...+..+..++...|++++|+..+++. ...| +...+..+...+...|++++    |...++++++.
T Consensus       201 ~~~l~~-~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        201 RALLPF-FALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHhc-CCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            998833 22233445555677889999999999999874 3445 46677788888999999985    89999999999


Q ss_pred             CCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       240 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .|++...+..++.++.+.|++++|...+++..+.
T Consensus       280 ~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l  313 (656)
T PRK15174        280 NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT  313 (656)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999864

>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=99.82  E-value=3.6e-17  Score=149.14  Aligned_cols=305  Identities=14%  Similarity=0.059  Sum_probs=206.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      +......+.+.|++++|+..|++..+.  .|+...|..+..+|...|++++|+..++.+++.. +.+..++..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            334555566666666666666666553  4555566666666666666666666666666553 2244455555555555


Q ss_pred             hCCHHHHH------------------------------------------------------------------------
Q 043124           89 CGSLDRSL------------------------------------------------------------------------   96 (331)
Q Consensus        89 ~g~~~~a~------------------------------------------------------------------------   96 (331)
                      .|++++|+                                                                        
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            55555554                                                                        


Q ss_pred             ----------------------------HHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH
Q 043124           97 ----------------------------LVFFKLREK------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG  142 (331)
Q Consensus        97 ----------------------------~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  142 (331)
                                                  +.|+...+.      ....|+.+...+...|++++|+..|++..+.. +-..
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~  365 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVT  365 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcH
Confidence                                        333333211      22346666777778888999999988888763 3345


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHH
Q 043124          143 VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGC  220 (331)
Q Consensus       143 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~  220 (331)
                      ..|..+...+...|++++|...|+...+..  +.+...|..+...+...|++++|+..|++. ...|+ ...+..+..++
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~  443 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLN--SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHH
Confidence            677778888888999999999999887332  334778888888999999999999999873 45564 66677777788


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccc----eEEe-------CC
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSS----WIEM-------ER  289 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~----~~~~-------~~  289 (331)
                      .+.|++++|...+++++...|+++..+..++.++...|++++|...|++..+...... +...    ++..       ..
T Consensus       444 ~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~-~~~~~~~~l~~~a~~~~~~~~  522 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETK-PMYMNVLPLINKALALFQWKQ  522 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccc-cccccHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999999886543211 1000    0000       00


Q ss_pred             EE----EEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          290 KV----YQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       290 ~~----~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      ..    ..+......+|++..++..+++++...++
T Consensus       523 ~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~  557 (615)
T TIGR00990       523 DFIEAENLCEKALIIDPECDIAVATMAQLLLQQGD  557 (615)
T ss_pred             hHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccC
Confidence            00    00000015678888888888888876554

>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=99.80  E-value=1.3e-16  Score=145.57  Aligned_cols=251  Identities=12%  Similarity=0.081  Sum_probs=207.2

Q ss_pred             CCChhHHHHHHHHHHHCC-CCC-CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHH
Q 043124           19 NKQFREALDAFNEMKNSG-ISP-DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSL   96 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~   96 (331)
                      .+++++|...|++..+.+ ..| ....+..+...+...|++++|+..+++.++.. +.....|..+..++...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            367899999999998764 223 45578888888899999999999999998874 334668888999999999999999


Q ss_pred             HHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC
Q 043124           97 LVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS  173 (331)
Q Consensus        97 ~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  173 (331)
                      ..|++..+   .+..+|..+...+...|++++|...|++.++.+ +.+...+..+...+.+.|++++|+..|++..+.. 
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-  463 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-  463 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            99997764   356789999999999999999999999999874 4467777788889999999999999999988332 


Q ss_pred             CCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcH-H-------HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          174 ITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPNA-V-------IWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       174 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~-~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                       +.+...++.+..++...|++++|++.|++ +...|+. .       .++..+..+...|++++|.+++++++..+|++.
T Consensus       464 -P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~  542 (615)
T TIGR00990       464 -PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECD  542 (615)
T ss_pred             -CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence             44577889999999999999999999987 3344431 1       112222223446999999999999999999988


Q ss_pred             chHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          245 GYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       245 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+..++.++.+.|++++|...|++..+.
T Consensus       543 ~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       543 IAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            88999999999999999999999998765

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

Probab=99.77  E-value=2.4e-18  Score=141.71  Aligned_cols=257  Identities=14%  Similarity=0.121  Sum_probs=111.9

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCC-CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhh
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGISP-DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKC   89 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (331)
                      .+...+.+.|++++|++++++......+| |..-|..+...+...++++.|++.++++.+.+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            55788889999999999997655443233 4455556666777899999999999999887633 56677777777 789


Q ss_pred             CCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCcHHHHHHHHHHHhccCcHHHHHHHHH
Q 043124           90 GSLDRSLLVFFKLRE--KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN-VEPNGVTFISVLSACTHAGLVEEGRRRFL  166 (331)
Q Consensus        90 g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  166 (331)
                      +++++|.++++..-+  ++...+..++..+.+.++++++.++++++.... .+.+...|..+...+.+.|+.++|...++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999887643  466678888899999999999999999987643 35677788888899999999999999999


Q ss_pred             hhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          167 SMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       167 ~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      +..+.   .| +......++..+...|+.+++.++++...  ...|...+..+..++...|+.++|..++++..+..|++
T Consensus       171 ~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d  247 (280)
T PF13429_consen  171 KALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDD  247 (280)
T ss_dssp             HHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccc
Confidence            99943   44 57788899999999999999887776532  23455667888999999999999999999999999999


Q ss_pred             cchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          244 SGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       244 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +.....++.++...|+.++|.++.++..+
T Consensus       248 ~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  248 PLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            99999999999999999999999887653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.77  E-value=3.7e-15  Score=144.65  Aligned_cols=263  Identities=14%  Similarity=0.062  Sum_probs=182.4

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HhhH------------HHHHHHHHccCCchHHHHHHHHHHHhC
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPD-QVTM------------ATVLSACAHLGALDLGREIHLYVMQIG   71 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~------------~~l~~~~~~~~~~~~a~~~~~~~~~~~   71 (331)
                      |...+..|...+.+.|++++|+..|++..+...... ...+            ......+...|++++|+..++++++..
T Consensus       302 ~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~  381 (1157)
T PRK11447        302 DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD  381 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            566777788888888888888888888776532211 1111            122335567788888888888877764


Q ss_pred             CCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHH-------------------------------------
Q 043124           72 FDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWN-------------------------------------  111 (331)
Q Consensus        72 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~-------------------------------------  111 (331)
                       +.+...+..+..++...|++++|++.|++..+.   +...+.                                     
T Consensus       382 -P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~  460 (1157)
T PRK11447        382 -NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQ  460 (1157)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence             345666777788888888888888888776532   122222                                     


Q ss_pred             -----HHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHH--
Q 043124          112 -----SIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCM--  184 (331)
Q Consensus       112 -----~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--  184 (331)
                           .+...+...|++++|++.|++..+.. +-+...+..+...+.+.|++++|...++++.+..  +.+...+..+  
T Consensus       461 ~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~--P~~~~~~~a~al  537 (1157)
T PRK11447        461 NDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK--PNDPEQVYAYGL  537 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHH
Confidence                 23334556788888888888888764 3355666778888888999999999988887332  1122222222  


Q ss_pred             ------------------------------------------HHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhh
Q 043124          185 ------------------------------------------VDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKL  222 (331)
Q Consensus       185 ------------------------------------------~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~  222 (331)
                                                                ...+...|+.++|..+++..  .++...+..+...+..
T Consensus       538 ~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~--p~~~~~~~~La~~~~~  615 (1157)
T PRK11447        538 YLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQ--PPSTRIDLTLADWAQQ  615 (1157)
T ss_pred             HHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhC--CCCchHHHHHHHHHHH
Confidence                                                      22344455555555555532  2334456667777889


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          223 HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       223 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .|++++|...++++++..|++...+..++.+|...|++++|.+.++...+.
T Consensus       616 ~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~  666 (1157)
T PRK11447        616 RGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT  666 (1157)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999999999999987653

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

Probab=99.76  E-value=2.7e-16  Score=134.50  Aligned_cols=268  Identities=15%  Similarity=0.114  Sum_probs=214.9

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhhCCHHHHHH
Q 043124           20 KQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGF--DIDVYIGSALVDMYAKCGSLDRSLL   97 (331)
Q Consensus        20 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~   97 (331)
                      -+..+|+.+|.+.... +..+.+....+..+|...+++++|+.+|+.+.+...  -.+..+|.+.+-.+-+.=.+.---+
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            3568899999995554 455667888999999999999999999999987631  2367788887766543222211111


Q ss_pred             HHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc
Q 043124           98 VFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE  177 (331)
Q Consensus        98 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  177 (331)
                      -+-.+....+.+|.++.++|.-+++++.|++.|++..+.+ +-...+|+.+..-+.....+|.|...|+...     ..+
T Consensus       412 ~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----~~~  485 (638)
T KOG1126|consen  412 DLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----GVD  485 (638)
T ss_pred             HHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhh-----cCC
Confidence            1222223467899999999999999999999999999864 3378999999889999999999999999988     334


Q ss_pred             HhHHH---HHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          178 VEHYG---CMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       178 ~~~~~---~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      +.+|+   .|...|.+.++++.|.-.|++. .+.|. ......+...+-+.|+.++|+++++++..++|.++..-...+.
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence            44554   5566799999999999999874 57774 5666667777899999999999999999999999988888999


Q ss_pred             HHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhc
Q 043124          253 MYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       253 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                      .+...+++++|+..++++++                           ..|+...++..++++|..++..
T Consensus       566 il~~~~~~~eal~~LEeLk~---------------------------~vP~es~v~~llgki~k~~~~~  607 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKE---------------------------LVPQESSVFALLGKIYKRLGNT  607 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHH---------------------------hCcchHHHHHHHHHHHHHHccc
Confidence            99999999999999999973                           4578888999999999988763

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.73  E-value=2.3e-14  Score=139.19  Aligned_cols=252  Identities=9%  Similarity=0.031  Sum_probs=164.6

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHH--------------
Q 043124           14 TCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIG--------------   79 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------------   79 (331)
                      ..+.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|++.|+++++... .+...+              
T Consensus       359 ~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~~~~~~~  436 (1157)
T PRK11447        359 DAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYRQQSPEK  436 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCHHH
Confidence            34455555555555555555542 22344444555555555555555555555554421 111111              


Q ss_pred             ----------------------------HHHHHHHHhhCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHH
Q 043124           80 ----------------------------SALVDMYAKCGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALA  128 (331)
Q Consensus        80 ----------------------------~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~  128 (331)
                                                  ..+...+...|++++|.+.|++..+  | +...+..+...|.+.|++++|..
T Consensus       437 A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~  516 (1157)
T PRK11447        437 ALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADA  516 (1157)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence                                        1223344456777777777776653  2 34556667777777777777777


Q ss_pred             HHHHHHHcCCCCcHHHHHHH--------------------------------------------HHHHhccCcHHHHHHH
Q 043124          129 MFDRMIYENVEPNGVTFISV--------------------------------------------LSACTHAGLVEEGRRR  164 (331)
Q Consensus       129 ~~~~m~~~~~~p~~~~~~~l--------------------------------------------l~~~~~~~~~~~a~~~  164 (331)
                      .++++.+.. +.+...+..+                                            ...+...|+.++|..+
T Consensus       517 ~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~  595 (1157)
T PRK11447        517 LMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEAL  595 (1157)
T ss_pred             HHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            777766542 2222222222                                            2333444555555555


Q ss_pred             HHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          165 FLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      ++.      .+.+...+..+...+.+.|++++|++.+++. ...| +...+..++..+...|++++|.+.++.+.+..|+
T Consensus       596 l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~  669 (1157)
T PRK11447        596 LRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATAND  669 (1157)
T ss_pred             HHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC
Confidence            441      1345556777888999999999999999874 3455 4778888999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          243 NSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       243 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      +...+..+..++...|++++|.++++++....
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            88888889999999999999999999987643

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.73  E-value=1.2e-14  Score=136.00  Aligned_cols=261  Identities=11%  Similarity=0.020  Sum_probs=208.6

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|..+..++.. ++.++|+..|.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            56778888877776 7888999988888776  466555445555567899999999999987654  444555667788


Q ss_pred             HHHhhCCHHHHHHHHhhcCCCChhhHHHH---HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLREKNLFCWNSI---IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      ++.+.|+.++|...+++..+.++...+..   ...+.+.|++++|...+++..+.  .|+...+..+...+.+.|+.++|
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHH
Confidence            88999999999999988876544333333   33444559999999999999886  45788888899999999999999


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMIL  239 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  239 (331)
                      +..|++.....  +.+...++.+..++...|++++|++.+++. ...| +...+..+..++...|++++|...++++++.
T Consensus       629 ~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        629 VSDLRAALELE--PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999988332  334677888888999999999999999873 4556 4677888888899999999999999999999


Q ss_pred             CCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          240 EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       240 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .|++..+.........+..+++.|.+-+++--..+
T Consensus       707 ~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~  741 (987)
T PRK09782        707 IDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFS  741 (987)
T ss_pred             CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcC
Confidence            99998888888899999999999998888765443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.72  E-value=9.9e-14  Score=129.20  Aligned_cols=263  Identities=12%  Similarity=-0.003  Sum_probs=148.1

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ...+..+...+...|++++|+..+++..+.. +.+.. +..+..++...|+.++|+..++++.+.. +.+...+..+..+
T Consensus        83 ~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~  159 (765)
T PRK10049         83 DDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQA  159 (765)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4445555556666666666666666665542 22334 5555556666666666666666666653 2234444445555


Q ss_pred             HHhhCCHHHHHHHHhhcCC-------------------------------------------------CChhh---H---
Q 043124           86 YAKCGSLDRSLLVFFKLRE-------------------------------------------------KNLFC---W---  110 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~-------------------------------------------------~~~~~---~---  110 (331)
                      +...|..++|++.++....                                                 .++..   +   
T Consensus       160 l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a  239 (765)
T PRK10049        160 LRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRA  239 (765)
T ss_pred             HHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHH
Confidence            5444554444433332111                                                 00000   0   


Q ss_pred             -HHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC--cHhHHHHHHH
Q 043124          111 -NSIIEGLAVHGFAHEALAMFDRMIYENVE-PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP--EVEHYGCMVD  186 (331)
Q Consensus       111 -~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~  186 (331)
                       ...+..+...|++++|+..|+++.+.+.+ |+. ....+..++...|++++|+..|+++.......+  .......+..
T Consensus       240 ~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~  318 (765)
T PRK10049        240 RIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFY  318 (765)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHH
Confidence             00012334556777777777777665421 222 112245567777777777777777662211110  1234455566


Q ss_pred             HHHHcCCHHHHHHHHHhCC-CCC-------------c---HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 043124          187 LLSKAGLLEDALELIRSSK-FQP-------------N---AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTL  249 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~~-~~p-------------~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  249 (331)
                      ++...|++++|...++++. ..|             +   ...+..+...+...|+.++|++.++++....|++...+..
T Consensus       319 a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~  398 (765)
T PRK10049        319 SLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRID  398 (765)
T ss_pred             HHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            6777777777777776542 112             2   1233445555777777888888877777777777777777


Q ss_pred             HHHHHHhcCCchHHHHHHHHHHh
Q 043124          250 LLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       250 l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ++.++...|++++|++.+++..+
T Consensus       399 lA~l~~~~g~~~~A~~~l~~al~  421 (765)
T PRK10049        399 YASVLQARGWPRAAENELKKAEV  421 (765)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Confidence            77777777888888877777764

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.70  E-value=7.6e-14  Score=130.82  Aligned_cols=228  Identities=10%  Similarity=-0.001  Sum_probs=187.6

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC--CChhhHHHHHHHH
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE--KNLFCWNSIIEGL  117 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~  117 (331)
                      +...|..+..++.. ++..+|...+.+.....  |+......+...+...|++++|...|+++..  ++...+..+..++
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHH
Confidence            56778888877776 89999999888887763  5554444556666789999999999998764  3445677788889


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      .+.|+.++|...+++..+.+ +++...+..+...+...|++++|...+++..+   +.|+...+..+..++.+.|++++|
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999998875 33444444444455567999999999999983   356788899999999999999999


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          198 LELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       198 ~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      +..+++. ...|+ ...++.+..++...|+.++|...++++++..|+++.++..+..++...|++++|...+++..+..
T Consensus       629 ~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        629 VSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999974 45665 66777777789999999999999999999999999999999999999999999999999998543

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

Probab=99.69  E-value=1.5e-16  Score=130.98  Aligned_cols=247  Identities=15%  Similarity=0.112  Sum_probs=115.3

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHHhC-CCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCC
Q 043124           46 TVLSACAHLGALDLGREIHLYVMQIG-FDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHG  121 (331)
Q Consensus        46 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~  121 (331)
                      .+...+.+.|++++|.++++...... .+.+...|..+.......++.+.|.+.++++...   ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            55778889999999999996655443 2446667777788888899999999999999865   34567777777 7899


Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHH
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELI  201 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  201 (331)
                      ++++|.+++++..+.  .++...+..++..+...++++++..+++.+......+.+...|..+...+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999887664  356677778888899999999999999998755555678888999999999999999999999


Q ss_pred             HhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCC
Q 043124          202 RSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRC  279 (331)
Q Consensus       202 ~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  279 (331)
                      ++. ...|+ ......++..+...|+.+++.++++...+..|+++..+..+..+|...|+.++|+..+++...       
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~-------  242 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALK-------  242 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH-------
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccc-------
Confidence            974 45675 777888999999999999999999999888788899999999999999999999999999873       


Q ss_pred             CccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhcC
Q 043124          280 PGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLAS  322 (331)
Q Consensus       280 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~g  322 (331)
                                          .+|+++.+...++.++...|..+
T Consensus       243 --------------------~~p~d~~~~~~~a~~l~~~g~~~  265 (280)
T PF13429_consen  243 --------------------LNPDDPLWLLAYADALEQAGRKD  265 (280)
T ss_dssp             --------------------HSTT-HHHHHHHHHHHT------
T ss_pred             --------------------ccccccccccccccccccccccc
Confidence                                45888889989888877666544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=2.5e-13  Score=117.06  Aligned_cols=247  Identities=12%  Similarity=0.021  Sum_probs=172.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHH-HHHHHHHccCCchHHHHHHHHHHHhCCCCchhHH--HHHHHHHHhhCCHHHH
Q 043124           19 NKQFREALDAFNEMKNSGISPDQVTMA-TVLSACAHLGALDLGREIHLYVMQIGFDIDVYIG--SALVDMYAKCGSLDRS   95 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~a   95 (331)
                      .|++++|.+.+....+..  +++..+. ....+..+.|+++.|.+.+.++.+.  .|+....  ......+...|++++|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            589999988777765542  2233333 3344557889999999999988775  3444322  2346788889999999


Q ss_pred             HHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH-------HHHHHHHHHHhccCcHHHHHHHH
Q 043124           96 LLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG-------VTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        96 ~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      ...++++.+.   ++.....+...|.+.|+|++|.+++..+.+.+..++.       .+|..++.......+.+...+++
T Consensus       173 l~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        173 RHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999887653   5667888889999999999999999999887644322       12333343334445566667777


Q ss_pred             HhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          166 LSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      +.+.+..  +.++.....+...+...|+.++|.+.+++. ...|+....  ++.+....++.+++.+.+++..+.+|+++
T Consensus       253 ~~lp~~~--~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~  328 (398)
T PRK10747        253 KNQSRKT--RHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTP  328 (398)
T ss_pred             HhCCHHH--hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCH
Confidence            7765322  446667777888888888888888888753 334454322  23333455888888888888888888888


Q ss_pred             chHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          245 GYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       245 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+..+...+.+.|+|++|.+.|+...+.
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~  357 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALKQ  357 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            88888888888888888888888887743

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.67  E-value=5.2e-13  Score=124.42  Aligned_cols=265  Identities=11%  Similarity=0.031  Sum_probs=161.7

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      .+...+..+...+...|++++|..+|++..+.. +.+...+..+..++...|++++|+..++++.+.. +.+.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHH
Confidence            344457888888888899999999998888763 3456667777788888899999999988888773 44555 77888


Q ss_pred             HHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHH-----------------------------
Q 043124           84 DMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFD-----------------------------  131 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~-----------------------------  131 (331)
                      .++...|+.++|+..++++.+.   +...+..+..++...+..++|++.++                             
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~  203 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTR  203 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhccccc
Confidence            8888889999999888887642   34455556666666666555554444                             


Q ss_pred             -----------------HHHHc-CCCCcHH-HHH----HHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          132 -----------------RMIYE-NVEPNGV-TFI----SVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       132 -----------------~m~~~-~~~p~~~-~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                                       .+.+. ...|+.. .+.    ..+.++...|++++|+..|+.+.+.....|+. ....+..+|
T Consensus       204 ~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~y  282 (765)
T PRK10049        204 SEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAY  282 (765)
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHH
Confidence                             33221 0111110 110    01223345566777777777766322111221 111235566


Q ss_pred             HHcCCHHHHHHHHHhCC-CCCc-----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC---------------cchH
Q 043124          189 SKAGLLEDALELIRSSK-FQPN-----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN---------------SGYC  247 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~~-~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---------------~~~~  247 (331)
                      ...|++++|+..|+++. ..|.     ......+..++...|++++|..+++++....|..               ...+
T Consensus       283 l~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~  362 (765)
T PRK10049        283 LKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQ  362 (765)
T ss_pred             HhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHH
Confidence            67777777777666531 2221     2334445555666777777777777766655421               1233


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          248 TLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       248 ~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ..++..+...|+.++|+.+++++..
T Consensus       363 ~~~a~~l~~~g~~~eA~~~l~~al~  387 (765)
T PRK10049        363 SLLSQVAKYSNDLPQAEMRARELAY  387 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4556666677777777777776654

>TIGR00540 hemY_coli hemY protein

Probab=99.67  E-value=3.1e-13  Score=117.12  Aligned_cols=261  Identities=10%  Similarity=-0.032  Sum_probs=187.2

Q ss_pred             HHHHHHHHH--hCCChhHHHHHHHHHHHCCCCCCHhh-HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            9 WTTMITCYS--QNKQFREALDAFNEMKNSGISPDQVT-MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         9 ~~~li~~~~--~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      +..+..+..  ..|+++.|.+.+.+..+.  .|++.. +-....+....|+.+.|.+.+.++.+....+...+.......
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l  162 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRI  162 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHH
Confidence            344444443  469999999999888775  455433 345566778889999999999998876422223344556888


Q ss_pred             HHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH---hccCcHH
Q 043124           86 YAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC---THAGLVE  159 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~---~~~~~~~  159 (331)
                      +...|+++.|.+.++.+.+.   +..++..+...+...|+|++|.+.+..+.+.++.+.......-..++   ...+..+
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~  242 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMAD  242 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            89999999999999988753   66788899999999999999999999999987543332211111111   2233333


Q ss_pred             HHHHHHHhhhhcC--CCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHH-HHHHHH--HhhcCCHHHHHHHH
Q 043124          160 EGRRRFLSMTCGY--SITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIW-GALLGG--CKLHRNLEIAHIAV  233 (331)
Q Consensus       160 ~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~-~~l~~~--~~~~~~~~~a~~~~  233 (331)
                      .+...+..+.+..  ..+.+...+..+...+...|+.++|.+.+++. ...||.... ..++..  ....++.+.+.+.+
T Consensus       243 ~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~  322 (409)
T TIGR00540       243 EGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLI  322 (409)
T ss_pred             cCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHH
Confidence            3334555544221  11237788888999999999999999999874 445665421 012222  34568889999999


Q ss_pred             HHHHhcCCCCc--chHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          234 NELMILEPNNS--GYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       234 ~~~~~~~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++..+..|+++  .....++..+.+.|++++|.+.|+...
T Consensus       323 e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~  362 (409)
T TIGR00540       323 EKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVA  362 (409)
T ss_pred             HHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhH
Confidence            99999999999  888899999999999999999999543

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.64  E-value=9.4e-13  Score=113.53  Aligned_cols=250  Identities=9%  Similarity=0.039  Sum_probs=196.7

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHH--HHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMA--TVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      ..+..+.|+++.|.+.|.++.+.  .|+.....  .....+...|+++.|...++.+.+.. +-+..+...+...|.+.|
T Consensus       125 A~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~g  201 (398)
T PRK10747        125 AEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTG  201 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHH
Confidence            44557899999999999999875  55654333  33567889999999999999999886 457888999999999999


Q ss_pred             CHHHHHHHHhhcCCCCh-----------hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           91 SLDRSLLVFFKLREKNL-----------FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        91 ~~~~a~~~~~~~~~~~~-----------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ++++|.+++..+.+...           .+|..++.......+.+...++++.+.+. .+.++.....+...+...|+.+
T Consensus       202 dw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~  280 (398)
T PRK10747        202 AWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHD  280 (398)
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHH
Confidence            99999999998875321           13444444444555667777777776543 3557788888999999999999


Q ss_pred             HHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          160 EGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       160 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      +|..++++..+ .  +++....  ++.+.+..++.+++++.+++. ...|+ ......+...|.+.+++++|.+.|+.+.
T Consensus       281 ~A~~~L~~~l~-~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al  355 (398)
T PRK10747        281 TAQQIILDGLK-R--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAAL  355 (398)
T ss_pred             HHHHHHHHHHh-c--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999983 2  5554222  344455669999999999864 45565 5567788888999999999999999999


Q ss_pred             hcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          238 ILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       238 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +..|++.. +..+..++.+.|+.++|.+++++-..
T Consensus       356 ~~~P~~~~-~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        356 KQRPDAYD-YAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             hcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999554 57899999999999999999998764

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

Probab=99.63  E-value=9.8e-14  Score=119.08  Aligned_cols=255  Identities=12%  Similarity=0.050  Sum_probs=204.1

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHccCCchHHHHHH-HHHHHhCCCCchhHHHHHHHHH
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGI--SPDQVTMATVLSACAHLGALDLGREIH-LYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      ..+.++|...+++++|..+|+.+.+...  .-+.++|++.+-.+-+    +-++..+ +.+.+.. +-.+.+|.++.++|
T Consensus       357 ~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~Laq~Li~~~-~~sPesWca~GNcf  431 (638)
T KOG1126|consen  357 SQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLAQDLIDTD-PNSPESWCALGNCF  431 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHHHHHHhhC-CCCcHHHHHhcchh
Confidence            4567899999999999999999987631  1266788888765532    2223333 3344442 45688999999999


Q ss_pred             HhhCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH---HHHHHHhccCcHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKN---LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFI---SVLSACTHAGLVEE  160 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---~ll~~~~~~~~~~~  160 (331)
                      .-.++.+.|++.|++..+-|   ..+|+.+..-+.....+|.|...|+..+..    |+..|+   .+...|.+.++.+.
T Consensus       432 SLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~rhYnAwYGlG~vy~Kqek~e~  507 (638)
T KOG1126|consen  432 SLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPRHYNAWYGLGTVYLKQEKLEF  507 (638)
T ss_pred             hhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC----CchhhHHHHhhhhheeccchhhH
Confidence            99999999999999988654   478999999999999999999999998653    444444   56678899999999


Q ss_pred             HHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          161 GRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      |+-.|++..   .+.| +......+...+-+.|+.++|++++++. .+.| |+..-..-+..+...+++++|...++++.
T Consensus       508 Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk  584 (638)
T KOG1126|consen  508 AEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELK  584 (638)
T ss_pred             HHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            999999998   3445 4666677788899999999999999974 3444 45555556667788999999999999999


Q ss_pred             hcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          238 ILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       238 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      ++.|++...|..++..|.+.|+.+.|+.-|--+.+...+
T Consensus       585 ~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  585 ELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            999999999999999999999999999988887765443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.62  E-value=4.4e-13  Score=109.59  Aligned_cols=261  Identities=15%  Similarity=0.204  Sum_probs=159.6

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      .+|.+||.++|+-...+.|.++|++-.....+.+..+||.+|.+-+-..    ..+++.+|.+..+.||..|+|+++.+.
T Consensus       208 et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~c~  283 (625)
T KOG4422|consen  208 ETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLSCA  283 (625)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHHHH
Confidence            4455555555555555555555555554444555555555554432111    144555555555555555555555555


Q ss_pred             HhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH-HHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE-GRRRF  165 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~  165 (331)
                      .+.|+++.|.                           ..|.+++.+|++.|+.|+..+|..+|..+++.++..+ +..++
T Consensus       284 akfg~F~~ar---------------------------~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i  336 (625)
T KOG4422|consen  284 AKFGKFEDAR---------------------------KAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWI  336 (625)
T ss_pred             HHhcchHHHH---------------------------HHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHH
Confidence            5555555443                           2467788889999999999999989888888877644 44444


Q ss_pred             Hhhhh---cCCCC---C-cHhHHHHHHHHHHHcCCHHHHHHHHHh--CC-----CCCc---HHHHHHHHHHHhhcCCHHH
Q 043124          166 LSMTC---GYSIT---P-EVEHYGCMVDLLSKAGLLEDALELIRS--SK-----FQPN---AVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       166 ~~~~~---~~~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~--~~-----~~p~---~~~~~~l~~~~~~~~~~~~  228 (331)
                      ..+..   ...++   | +...+..-+..|.+..+.+-|.++-.-  -|     +.|+   ..-|..+....+.....+.
T Consensus       337 ~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~  416 (625)
T KOG4422|consen  337 NDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDV  416 (625)
T ss_pred             HHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44432   11222   2 345566667777788888877776432  11     2233   2335566666777888888


Q ss_pred             HHHHHHHHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCch
Q 043124          229 AHIAVNELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASD  305 (331)
Q Consensus       229 a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~  305 (331)
                      ....++.++-  ..|.+. +...++++..-.|.++-.-+++..+.+.|-..+      -.++..+...+..++.||..+
T Consensus       417 ~~~~Y~~lVP~~y~p~~~-~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r------~~l~eeil~~L~~~k~hp~tp  488 (625)
T KOG4422|consen  417 TLKWYEDLVPSAYFPHSQ-TMIHLLRALDVANRLEVIPRIWKDSKEYGHTFR------SDLREEILMLLARDKLHPLTP  488 (625)
T ss_pred             HHHHHHHhccceecCCch-hHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhh------HHHHHHHHHHHhcCCCCCCCh
Confidence            8888888876  456644 447788899999999999999999998874433      112222223344457777655

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.60  E-value=1.2e-11  Score=114.05  Aligned_cols=158  Identities=13%  Similarity=0.044  Sum_probs=119.4

Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC----CCCcHhHHHHHHHHHHH
Q 043124          115 EGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS----ITPEVEHYGCMVDLLSK  190 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~  190 (331)
                      -++...|++.++++.|+.+...|.+....+-..+..+|...+.+++|+.+|..+....+    .+++......|..+|..
T Consensus       300 ~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld  379 (822)
T PRK14574        300 GALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNE  379 (822)
T ss_pred             HHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHh
Confidence            34566778888888888888777655556777788888899999999999998863321    22344445778888889


Q ss_pred             cCCHHHHHHHHHhCCC----------------CCcH-HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          191 AGLLEDALELIRSSKF----------------QPNA-VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       191 ~~~~~~a~~~~~~~~~----------------~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      ++++++|..+++++.-                .||- ..+..++..+.-.|+..+|++.++++....|.+......+..+
T Consensus       380 ~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v  459 (822)
T PRK14574        380 SEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASI  459 (822)
T ss_pred             cccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999888876421                1222 2334455567888999999999999988899999998889999


Q ss_pred             HHhcCCchHHHHHHHHHHh
Q 043124          254 YAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       254 ~~~~g~~~~a~~~~~~m~~  272 (331)
                      +...|...+|...++....
T Consensus       460 ~~~Rg~p~~A~~~~k~a~~  478 (822)
T PRK14574        460 YLARDLPRKAEQELKAVES  478 (822)
T ss_pred             HHhcCCHHHHHHHHHHHhh
Confidence            9999999999999977653

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

Probab=99.59  E-value=2.4e-12  Score=106.23  Aligned_cols=255  Identities=13%  Similarity=0.075  Sum_probs=193.8

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhhCC
Q 043124           14 TCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGF--DIDVYIGSALVDMYAKCGS   91 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~   91 (331)
                      .++-...+.+++++-.......|.+.+...-+....+.....|++.|+.+|+++.+...  -.|..+|+.++-.-....+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            44555566777777777777777655544444444455667888888888888877631  1245666665433222111


Q ss_pred             HHH-HHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhh
Q 043124           92 LDR-SLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTC  170 (331)
Q Consensus        92 ~~~-a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  170 (331)
                      +.- |..+ -.+-+--+.|..++.+.|.-.+++++|...|++.++.+ +-....|+.+..-|....+...|+.-|+...+
T Consensus       315 Ls~LA~~v-~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  315 LSYLAQNV-SNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             HHHHHHHH-HHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            111 2221 12222345677778888888999999999999999986 45677888888999999999999999999993


Q ss_pred             cCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHH
Q 043124          171 GYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCT  248 (331)
Q Consensus       171 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  248 (331)
                      -.  +.|-..|-.|.++|.-.+...-|+-.|++. .++| |...|.+|..+|.+.++.++|++.|.+++..+-.+...+.
T Consensus       393 i~--p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~  470 (559)
T KOG1155|consen  393 IN--PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALV  470 (559)
T ss_pred             cC--chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHH
Confidence            22  457889999999999999999999999974 4666 6889999999999999999999999999997766778889


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHh
Q 043124          249 LLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       249 ~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .|+..|.+.++.++|...|++-.+
T Consensus       471 ~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  471 RLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999999999998765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.57  E-value=2.1e-12  Score=103.28  Aligned_cols=196  Identities=14%  Similarity=0.048  Sum_probs=140.3

Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      ...+..+...+...|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+.+ +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            44556666667777777777777765543   234566667777777777888888777777654 34455666677777


Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHH
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      ...|++++|...+++.............+..+...+...|++++|...+++. ...| +...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            7888888888888887732222223456666777788888888888888763 2334 3556777777888889999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          231 IAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ..++++....|.+...+..++..+...|+.++|..+.+.+..
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       190 AYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999988887777777777788888888999998888877654

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.56  E-value=3.2e-11  Score=111.23  Aligned_cols=141  Identities=11%  Similarity=0.030  Sum_probs=89.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      .++..+...|+.++|+..+++.... -.........+...+...|++++|+++++++.+.. +.+..++..++..+...+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcC
Confidence            6777777778888888888887721 11122223333557777788888888888888875 335666777778888888


Q ss_pred             CHHHHHHHHhhcCCCChh--hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc
Q 043124           91 SLDRSLLVFFKLREKNLF--CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH  154 (331)
Q Consensus        91 ~~~~a~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  154 (331)
                      +.++|++.++++.+.+..  .+..++..+...++..+|++.++++.+.+ |-+...+..+..++.+
T Consensus       151 q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~  215 (822)
T PRK14574        151 RGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQR  215 (822)
T ss_pred             CHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            888888888888765443  33333333333555555888888887763 3334444444444433

>TIGR00540 hemY_coli hemY protein

Probab=99.56  E-value=1.6e-11  Score=106.46  Aligned_cols=257  Identities=11%  Similarity=-0.026  Sum_probs=186.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHh--hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQV--TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      |-....+..+.|+++.|.+.|.+..+..  |+..  ........+...|+++.|...++.+.+.. |-+..++..+...+
T Consensus       121 ~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~  197 (409)
T TIGR00540       121 LIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAY  197 (409)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3344577788899999999999988753  4443  33345777888999999999999999986 44678889999999


Q ss_pred             HhhCCHHHHHHHHhhcCCC---ChhhHH----HHHHHHHhCCCHHHHHHHHHHHHHcCC---CCcHHHHHHHHHHHhccC
Q 043124           87 AKCGSLDRSLLVFFKLREK---NLFCWN----SIIEGLAVHGFAHEALAMFDRMIYENV---EPNGVTFISVLSACTHAG  156 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~---~~~~~~----~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~~~~~~~ll~~~~~~~  156 (331)
                      ...|++++|.+.+..+.+.   +...+.    .........+..+++.+.+..+.+...   +.+...+..+...+...|
T Consensus       198 ~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g  277 (409)
T TIGR00540       198 IRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCD  277 (409)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCC
Confidence            9999999999999988754   222221    111122233333334445555554421   137788888999999999


Q ss_pred             cHHHHHHHHHhhhhcCCCCCcHhH---HHHHHHHHHHcCCHHHHHHHHHh-CCCCCcH---HHHHHHHHHHhhcCCHHHH
Q 043124          157 LVEEGRRRFLSMTCGYSITPEVEH---YGCMVDLLSKAGLLEDALELIRS-SKFQPNA---VIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       157 ~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~---~~~~~l~~~~~~~~~~~~a  229 (331)
                      +.++|.+.+++..+.   .|+...   ...........++.+.+.+.+++ ....|+.   ....++...+.+.|++++|
T Consensus       278 ~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A  354 (409)
T TIGR00540       278 DHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEA  354 (409)
T ss_pred             ChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHH
Confidence            999999999999943   333221   11112223445788888888876 3345543   4556788889999999999


Q ss_pred             HHHHHH--HHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          230 HIAVNE--LMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       230 ~~~~~~--~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .+.|++  ..+..|++.. +..+...+.+.|+.++|.+++++...
T Consensus       355 ~~~le~a~a~~~~p~~~~-~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       355 ADAFKNVAACKEQLDAND-LAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHhHHhhcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999994  6668888555 57999999999999999999998643

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.56  E-value=7.4e-12  Score=112.59  Aligned_cols=260  Identities=13%  Similarity=-0.000  Sum_probs=183.1

Q ss_pred             CchhhHHHHHHHHHh-----CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHH---------ccCCchHHHHHHHHHHH
Q 043124            4 RDIISWTTMITCYSQ-----NKQFREALDAFNEMKNSGISPDQVTMATVLSACA---------HLGALDLGREIHLYVMQ   69 (331)
Q Consensus         4 p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~   69 (331)
                      .+...|...+++-..     .+++++|..+|++..+.. +-+...|..+..++.         ..+++++|...++++++
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            455666666666422     234678999999998864 224556666655443         23457899999999988


Q ss_pred             hCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Q 043124           70 IGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFI  146 (331)
Q Consensus        70 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  146 (331)
                      .. +.+..++..+..++...|++++|...|++..+  | +...|..+...+...|++++|...+++..+.+.. +...+.
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~  410 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGI  410 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHH
Confidence            75 44678888888899999999999999998764  3 4567888999999999999999999999887522 333333


Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCcHHHH-HHHHHHHhhc
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK-FQPNAVIW-GALLGGCKLH  223 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~~-~~l~~~~~~~  223 (331)
                      .++..+...|++++|...+++..+..  +| +...+..+..++...|++++|...+++.. ..|+.... +.+...+...
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~--~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQH--LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhc--cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhcc
Confidence            34445667889999999999987332  23 35556777888889999999999998753 44554443 4444446666


Q ss_pred             CCHHHHHHHHHHHHh---cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          224 RNLEIAHIAVNELMI---LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~---~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      |  +.|...++++.+   ..|.++..   +...|.-.|+.+.+..+ +++.+.|
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGL---LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchH---HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            6  477787777766   33443333   55666677887777666 7776654

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

Probab=99.55  E-value=1.4e-11  Score=97.44  Aligned_cols=273  Identities=14%  Similarity=0.071  Sum_probs=177.2

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC-c--hhHHHHHHHHHHhhCCHHH
Q 043124           18 QNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDI-D--VYIGSALVDMYAKCGSLDR   94 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~~~~l~~~~~~~g~~~~   94 (331)
                      -+++.++|.++|-+|.+.. +-+..+.-+|.+.|.+.|..|.|+++.+.+.++.--+ +  ..+...|..=|...|-+|+
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            4578999999999999863 3355566789999999999999999999888752111 1  2344457778999999999


Q ss_pred             HHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH----HHHHHHHHHHhccCcHHHHHHHHHh
Q 043124           95 SLLVFFKLREKN---LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG----VTFISVLSACTHAGLVEEGRRRFLS  167 (331)
Q Consensus        95 a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~  167 (331)
                      |+++|..+.+.+   ..+...|+..|-..++|++|+++-+++.+.+-.+..    ..|.-+...+....+.+.|...+.+
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            999999998743   346778889999999999999999988877644432    2233344444455666666666666


Q ss_pred             hhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCc--HHHHHHHHHHHhhcCCHHHHHHHHHHHHh------
Q 043124          168 MTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-FQPN--AVIWGALLGGCKLHRNLEIAHIAVNELMI------  238 (331)
Q Consensus       168 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------  238 (331)
                      .....  +..+..--.+.+.....|+++.|.+.++... -.|+  ..+...|..+|...|+.++...++.++.+      
T Consensus       206 Alqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~  283 (389)
T COG2956         206 ALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD  283 (389)
T ss_pred             HHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence            66221  1122233334455666666666666665432 2232  33445555666666666666665555544      


Q ss_pred             ---------------------------cCCCCcchHHHHHHHHH---hcCCchHHHHHHHHHHhcCCCCCCCccceEEeC
Q 043124          239 ---------------------------LEPNNSGYCTLLLNMYA---EVSRWAEVTKIRVAMKELGIEKRCPGSSWIEME  288 (331)
Q Consensus       239 ---------------------------~~p~~~~~~~~l~~~~~---~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  288 (331)
                                                 .+|+... +..|+..-.   ..|...+-..+++.|....++.. |.+.+...+
T Consensus       284 ~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~g-f~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~-~~YRC~~CG  361 (389)
T COG2956         284 AELMLADLIELQEGIDAAQAYLTRQLRRKPTMRG-FHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRK-PRYRCQNCG  361 (389)
T ss_pred             HHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHH-HHHHHHhhhccccccchhhhHHHHHHHHHHHHhhc-CCceecccC
Confidence                                       3444222 233443332   23456777778888877777766 777777776


Q ss_pred             CEEEEee
Q 043124          289 RKVYQFA  295 (331)
Q Consensus       289 ~~~~~~~  295 (331)
                      ...+.+.
T Consensus       362 F~a~~l~  368 (389)
T COG2956         362 FTAHTLY  368 (389)
T ss_pred             Ccceeee
Confidence            6666554

>PF13041 PPR_2: PPR repeat family

Probab=99.54  E-value=2.5e-14  Score=84.28  Aligned_cols=50  Identities=34%  Similarity=0.665  Sum_probs=47.9

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAH   53 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   53 (331)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999874

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.53  E-value=9.2e-12  Score=99.59  Aligned_cols=199  Identities=14%  Similarity=0.045  Sum_probs=142.9

Q ss_pred             CCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHH
Q 043124           39 PDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIE  115 (331)
Q Consensus        39 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~  115 (331)
                      .....+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.+++..+   .+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            345667777778888888888888888877764 34566777778888888888888888876653   24456777788


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCC-CCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCH
Q 043124          116 GLAVHGFAHEALAMFDRMIYENV-EPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLL  194 (331)
Q Consensus       116 ~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  194 (331)
                      .+...|++++|.+.+++...... +.....+..+...+...|++++|...+++.....  +.+...+..+...+...|++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCH
Confidence            88888888888888888876432 2234455667777888888888888888877322  23456677778888888888


Q ss_pred             HHHHHHHHhCC-C-CCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          195 EDALELIRSSK-F-QPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       195 ~~a~~~~~~~~-~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      ++|...+++.. . ..+...+..+...+...|+.+.|..+.+.+....
T Consensus       186 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       186 KDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            88888877532 2 3345556666677778888888888877766543

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.

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

Probab=99.52  E-value=1.6e-11  Score=101.47  Aligned_cols=242  Identities=12%  Similarity=0.120  Sum_probs=185.2

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHH------------------------------------HHHHccCCch
Q 043124           15 CYSQNKQFREALDAFNEMKNSGISPDQVTMATVL------------------------------------SACAHLGALD   58 (331)
Q Consensus        15 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~------------------------------------~~~~~~~~~~   58 (331)
                      -+.++|+++.|+++++-+.+..-+.-...-+.|-                                    +.....|+++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHH
Confidence            4778899999999888776653221111111111                                    1112236778


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 043124           59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR---EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIY  135 (331)
Q Consensus        59 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  135 (331)
                      +|.+.+++.+.....-....|| +.-.+-..|++++|++.|-++.   ..++.+...+.+.|-...++..|++++.+...
T Consensus       508 ka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~s  586 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANS  586 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc
Confidence            8888888877664333333343 3445677899999999887654   45777788888889999999999999988766


Q ss_pred             cCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCcHHHHH
Q 043124          136 ENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-FQPNAVIWG  214 (331)
Q Consensus       136 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~~~  214 (331)
                      . ++.|+.....|...|-+.|+-..|++.+-.--+  -++.+..+..-|...|....-+++++..|++.. ++|+..-|.
T Consensus       587 l-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwq  663 (840)
T KOG2003|consen  587 L-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQ  663 (840)
T ss_pred             c-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHH
Confidence            5 677788899999999999999999998766552  235678888888899999999999999999854 799999999


Q ss_pred             HHHHHH-hhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCc
Q 043124          215 ALLGGC-KLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRW  260 (331)
Q Consensus       215 ~l~~~~-~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  260 (331)
                      .++..| .+.|++++|.++++...+..|.+......|++.+...|..
T Consensus       664 lmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  664 LMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccch
Confidence            888775 5789999999999999999999999999999999888753

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

Probab=99.51  E-value=1.2e-10  Score=94.68  Aligned_cols=249  Identities=12%  Similarity=0.060  Sum_probs=172.6

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHH
Q 043124           19 NKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLV   98 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~   98 (331)
                      .|+|.+|+++..+-.+.+-. ....|..-..+..+.|+.+.+-+++.++.+..-.++....-+..+.....|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            58999999999998887644 34556666778888999999999999988874466777788888889999999999887


Q ss_pred             HhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH-------HHHHHHHHHHhccCcHHHHHHHHHhh
Q 043124           99 FFKLR---EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG-------VTFISVLSACTHAGLVEEGRRRFLSM  168 (331)
Q Consensus        99 ~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~  168 (331)
                      +.++.   ..++........+|.+.|+|..+..++.+|.+.|.-.++       .++..++.-+...+..+.-.+.|+..
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            76654   457788999999999999999999999999998865443       45666777666667777666777777


Q ss_pred             hhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc--------------------------------HHHHHH
Q 043124          169 TCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN--------------------------------AVIWGA  215 (331)
Q Consensus       169 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~--------------------------------~~~~~~  215 (331)
                      ..+.  .-++..-.+++.-+.+.|+.++|.+++++ ++-.-|                                +..+.+
T Consensus       256 pr~l--r~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~t  333 (400)
T COG3071         256 PRKL--RNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLST  333 (400)
T ss_pred             cHHh--hcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHH
Confidence            6433  34455566677778888888888777654 221111                                233444


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      |...|.+.+.+.+|...|+.+++..|+ ...|..+..++.+.|+.++|.++.++..
T Consensus       334 LG~L~~k~~~w~kA~~~leaAl~~~~s-~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         334 LGRLALKNKLWGKASEALEAALKLRPS-ASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhcCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            444455555555555555555554444 3334555555555555555555555444

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.51  E-value=1.5e-11  Score=100.81  Aligned_cols=245  Identities=10%  Similarity=0.182  Sum_probs=127.0

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHH--HHccCCchHHHH-HHHHHHHhCCCCchhHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSA--CAHLGALDLGRE-IHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~--~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +.+=|.|++.- ..|....+.-+|+.|.+.|+..++..-..|+..  |.+..++--+++ .|-.|.+.| ..+..+|   
T Consensus       116 V~~E~nL~kmI-S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLKMI-SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW---  190 (625)
T ss_pred             hcchhHHHHHH-hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc---
Confidence            44556666654 567788888999999999988888776666653  333333332221 222233222 1122222   


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                           +.|.+.+   ++-+...+...+|.+||.++|+--..+.|.+++++..+...+.+..+||.+|.+-+-..+    .
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----K  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----H
Confidence                 2333322   333444444555666666666655566666666655555455555566655554332222    4


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHH----H---HHhCCCCCcHHHHHHHHHHHhhcCCHH-HHHHHHH
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALE----L---IRSSKFQPNAVIWGALLGGCKLHRNLE-IAHIAVN  234 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~----~---~~~~~~~p~~~~~~~l~~~~~~~~~~~-~a~~~~~  234 (331)
                      +++.+|. ...+.||..|+|+++++..+.|+++.|..    +   ++++|+.|...+|..+|..+.+.++.. .+..++.
T Consensus       259 ~Lv~EMi-sqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~  337 (625)
T KOG4422|consen  259 KLVAEMI-SQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIN  337 (625)
T ss_pred             HHHHHHH-HhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHH
Confidence            4555555 44555666666666666666665554422    2   233455666666666665555544432 2333333


Q ss_pred             HHHh---------cCCCCcchHHHHHHHHHhcCCchHHHHHHH
Q 043124          235 ELMI---------LEPNNSGYCTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       235 ~~~~---------~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      ++..         ..|++..+|..-+..|.+..+.+-|.++..
T Consensus       338 dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~  380 (625)
T KOG4422|consen  338 DIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHG  380 (625)
T ss_pred             HHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            3322         334444445555555555555555555443

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

Probab=99.50  E-value=3.1e-12  Score=113.22  Aligned_cols=232  Identities=16%  Similarity=0.203  Sum_probs=143.5

Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCC
Q 043124           27 DAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKN  106 (331)
Q Consensus        27 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  106 (331)
                      .++..+...|+.|+..||..+|..||..|+.+.|- +|..|.-...+.+...++.++.+...+++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            46678888999999999999999999999999998 9999988888888999999999999999887775       788


Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          107 LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       107 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      ..+|+.|..+|..+||... ++..++           ....+...+...|.-..-..++..+.-..+.-||.   ...+.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda---~n~il  147 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDA---ENAIL  147 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhH---HHHHH
Confidence            8999999999999999765 222222           11122333344444444444444433222233332   22344


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcC-CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHH
Q 043124          187 LLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHR-NLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTK  265 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  265 (331)
                      ...-.|-++.+++++..++......++..+++-+.... .+++-....+...+ .|+ +..|..++.+-..+|+.+.|..
T Consensus       148 llv~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e-~~~-s~~l~a~l~~alaag~~d~Ak~  225 (1088)
T KOG4318|consen  148 LLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE-APT-SETLHAVLKRALAAGDVDGAKN  225 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc-CCC-hHHHHHHHHHHHhcCchhhHHH
Confidence            44555556666666655542111111111233333222 23333333333333 343 4555666666666666666666


Q ss_pred             HHHHHHhcCCCCCCCccce
Q 043124          266 IRVAMKELGIEKRCPGSSW  284 (331)
Q Consensus       266 ~~~~m~~~~~~~~~~~~~~  284 (331)
                      ++.+|++.|++.+ +++.|
T Consensus       226 ll~emke~gfpir-~HyFw  243 (1088)
T KOG4318|consen  226 LLYEMKEKGFPIR-AHYFW  243 (1088)
T ss_pred             HHHHHHHcCCCcc-cccch
Confidence            6666666666666 55555

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.50  E-value=1.3e-11  Score=106.64  Aligned_cols=231  Identities=15%  Similarity=0.111  Sum_probs=177.5

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHHh-----C-CCCchhH-HHHHHHHHHhhCCHHHHHHHHhhcCC-------C--
Q 043124           42 VTMATVLSACAHLGALDLGREIHLYVMQI-----G-FDIDVYI-GSALVDMYAKCGSLDRSLLVFFKLRE-------K--  105 (331)
Q Consensus        42 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~-------~--  105 (331)
                      .+...+...|...|+++.|+.++++.++.     | ..|.+.+ .+.+...|...+++++|..+|+++..       +  
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            46667888999999999999999988775     2 1233333 33478889999999999999987763       1  


Q ss_pred             --ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc-----C-CCCcH-HHHHHHHHHHhccCcHHHHHHHHHhhhhcCC--C
Q 043124          106 --NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE-----N-VEPNG-VTFISVLSACTHAGLVEEGRRRFLSMTCGYS--I  174 (331)
Q Consensus       106 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~  174 (331)
                        -..+++.|..+|.+.|++++|...+++..+.     | ..|.. ..++.+...|...+++++|..++....+...  +
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence              2357888999999999999988888876542     2 12332 3355677788999999999999987664222  1


Q ss_pred             CC----cHhHHHHHHHHHHHcCCHHHHHHHHHhC-------C--CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHh--
Q 043124          175 TP----EVEHYGCMVDLLSKAGLLEDALELIRSS-------K--FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMI--  238 (331)
Q Consensus       175 ~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~--~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  238 (331)
                      .+    ...+++.|...|...|++++|.+++++.       .  ..+. ...++.+...|.+.+++..|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            22    2468999999999999999999998853       1  2233 55678888889999999999999998876  


Q ss_pred             --cC---CCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          239 --LE---PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       239 --~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                        .+   |+....|..|+.+|.+.|+++.|.++.+....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence              33   45556788999999999999999999988763

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

Probab=99.49  E-value=1.4e-10  Score=98.24  Aligned_cols=260  Identities=10%  Similarity=0.024  Sum_probs=211.5

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      +...-.-..-|...+++.+..++++...+.. ++....+..-|.++...|+..+-..+=.++.+. .|....+|-++...
T Consensus       244 ~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  244 LDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCY  321 (611)
T ss_pred             HHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHH
Confidence            3334444566778899999999999998874 667777777777888899988777777777776 46678899999999


Q ss_pred             HHhhCCHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           86 YAKCGSLDRSLLVFFKLREKNL---FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      |.-.|+..+|.+.|.+...-|.   ..|-.++..|+-.|..++|...|...-+. ++-...-+.-+.--|.+.++.+.|.
T Consensus       322 Yl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHH
Confidence            9999999999999998765543   58999999999999999999999887665 2222222333555688999999999


Q ss_pred             HHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC--------CCC-cHHHHHHHHHHHhhcCCHHHHHHH
Q 043124          163 RRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK--------FQP-NAVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       163 ~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~p-~~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      ++|....   ++.| |+...+-+.-.....+.+.+|...|+...        -.+ ...+++.|..+|.+.+.+++|+..
T Consensus       401 ~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  401 KFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            9999988   4445 57777777777778899999999887521        112 456788899999999999999999


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          233 VNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       233 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +++++...|.+..+|..++-.|...|+++.|.+.|.+..
T Consensus       478 ~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  478 YQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            999999999999999999999999999999999999977

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

Probab=99.49  E-value=4.9e-12  Score=100.15  Aligned_cols=225  Identities=12%  Similarity=0.006  Sum_probs=194.4

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhC
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVH  120 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~  120 (331)
                      -+.+..+|.+.|.+.+|...++..++.  .|-+.||..|-.+|.+..+...|+.+|.+-.+.   |+....-+.+.+-..
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHH
Confidence            357888999999999999999988886  456778888999999999999999999988763   444555677888899


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHH
Q 043124          121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALEL  200 (331)
Q Consensus       121 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  200 (331)
                      ++.++|.++|+...+.. +.+.....++...|.-.++.+.|.++|+++. ..|+. ++..|+.+..+|.-.++++-++..
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiL-qmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRIL-QMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHH-HhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            99999999999998874 5677888888888999999999999999999 66754 677899999999999999999999


Q ss_pred             HHhCC---CCCc--HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          201 IRSSK---FQPN--AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       201 ~~~~~---~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      |++..   .+|+  ...|..+-...+..||+..|.+.|+-++..+|++...++.|...-.+.|++++|..++......
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            88632   3454  4578888888899999999999999999999999999999999999999999999999987754

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

Probab=99.49  E-value=2.4e-10  Score=101.79  Aligned_cols=264  Identities=16%  Similarity=0.171  Sum_probs=157.7

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ...|.+|...|-+.|+.+++...+-..-..+ +-|...|..+.....+.|+++.|.-.|.++++.. +++....-.-...
T Consensus       173 ~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L  250 (895)
T KOG2076|consen  173 PIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSL  250 (895)
T ss_pred             hhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHH
Confidence            3444445555555555544444433332221 2233444444444444555555555555555543 2333333334445


Q ss_pred             HHhhCCHHHHHHHHhhcCCCCh--------hhHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCcHHHHHHHHHHHhccC
Q 043124           86 YAKCGSLDRSLLVFFKLREKNL--------FCWNSIIEGLAVHGFAHEALAMFDRMIYEN-VEPNGVTFISVLSACTHAG  156 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~~~--------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~  156 (331)
                      |-+.|+...|.+.|.++.+.++        ..-...+..+...++.+.|.+.++.....+ -..+...++.++..+.+..
T Consensus       251 ~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~  330 (895)
T KOG2076|consen  251 YQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNK  330 (895)
T ss_pred             HHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhH
Confidence            5555555555555555543211        111122344444555555555555554421 1223344455555555555


Q ss_pred             cHHHHHHHHHhhhh------------------------------------------------------------cCCC--
Q 043124          157 LVEEGRRRFLSMTC------------------------------------------------------------GYSI--  174 (331)
Q Consensus       157 ~~~~a~~~~~~~~~------------------------------------------------------------~~~~--  174 (331)
                      .++.|......+..                                                            ...+  
T Consensus       331 q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~  410 (895)
T KOG2076|consen  331 QSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWV  410 (895)
T ss_pred             HHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCCh
Confidence            55555555444442                                                            0011  


Q ss_pred             CCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCC---CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 043124          175 TPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQ---PNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLL  251 (331)
Q Consensus       175 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  251 (331)
                      .-+...|.-+..+|...|++.+|+.+|..+...   -+...|..+.++|...|.+++|.+.+++++...|++......|.
T Consensus       411 ~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~La  490 (895)
T KOG2076|consen  411 SDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLA  490 (895)
T ss_pred             hhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHH
Confidence            112446667778889999999999999876422   24668899999999999999999999999999999999999999


Q ss_pred             HHHHhcCCchHHHHHHHHHH
Q 043124          252 NMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       252 ~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..+.+.|+.++|.+.+..+.
T Consensus       491 sl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  491 SLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHhcCCHHHHHHHHhccc
Confidence            99999999999999998876

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

Probab=99.45  E-value=3.3e-10  Score=92.25  Aligned_cols=223  Identities=15%  Similarity=0.048  Sum_probs=159.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      |-.-..+--+.|+++.+-.++.+.-+.--.++...+-+........|+.+.|..-.+++.+.+ +.+..+.....++|.+
T Consensus       121 ~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~  199 (400)
T COG3071         121 YLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIR  199 (400)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHH
Confidence            333344555566777777766666654223344444455555666667777766666666664 3345556666667777


Q ss_pred             hCCHHHHHHHHhhcCC---------------------------------------------CChhhHHHHHHHHHhCCCH
Q 043124           89 CGSLDRSLLVFFKLRE---------------------------------------------KNLFCWNSIIEGLAVHGFA  123 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~---------------------------------------------~~~~~~~~li~~~~~~~~~  123 (331)
                      .|++.....++..+.+                                             .++..-..++.-+.+.|+.
T Consensus       200 ~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~  279 (400)
T COG3071         200 LGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDH  279 (400)
T ss_pred             hccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCCh
Confidence            7776666666655542                                             1344455666778889999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          124 HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       124 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                      ++|.++..+..+.+..|+..    ..-.+.+-++.+.-++..+...+..+..|  ..+.+|...|.+.+.+.+|...|+.
T Consensus       280 ~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~lea  353 (400)
T COG3071         280 DEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEA  353 (400)
T ss_pred             HHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999888887766622    22356677888877777777775554444  6888899999999999999999996


Q ss_pred             -CCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          204 -SKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       204 -~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                       +...|+..+|+.+..++.+.|+..+|.+..++.+.
T Consensus       354 Al~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         354 ALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence             56889999999999999999999999999999886

>PF13041 PPR_2: PPR repeat family

Probab=99.44  E-value=5e-13  Score=78.66  Aligned_cols=50  Identities=22%  Similarity=0.452  Sum_probs=42.2

Q ss_pred             CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc
Q 043124          105 KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH  154 (331)
Q Consensus       105 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  154 (331)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.++.+|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            57788888888888888888888888888888888888888888888764

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

Probab=99.44  E-value=1.4e-10  Score=96.12  Aligned_cols=251  Identities=11%  Similarity=0.073  Sum_probs=199.0

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           15 CYSQNKQFREALDAFNEMKNSGI--SPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        15 ~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      +.-...++++|+.+|+++.+...  --|..+|+.++-+-....    .+..+.+-...--+-.+.|+..+.+.|.-.++.
T Consensus       271 ~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s----kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eH  346 (559)
T KOG1155|consen  271 ASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS----KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEH  346 (559)
T ss_pred             HHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH----HHHHHHHHHHHhccCCccceeeehhHHHHHHhH
Confidence            34456899999999999998742  126678887775543221    222332222111123466888899999999999


Q ss_pred             HHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124           93 DRSLLVFFKLREKN---LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus        93 ~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ++|...|++..+-|   ..+|+.++.-|....+...|.+.|+..++.+ |.|-..|-.|..+|.-.+.+.-|.-+|++..
T Consensus       347 EKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~  425 (559)
T KOG1155|consen  347 EKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKAL  425 (559)
T ss_pred             HHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHH
Confidence            99999999887644   4689999999999999999999999999985 6688899999999999999999999999988


Q ss_pred             hcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh-------cC
Q 043124          170 CGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI-------LE  240 (331)
Q Consensus       170 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~  240 (331)
                       ... +-|...|.+|..+|.+.++.++|+++|+..-  -..+...+..|...+-+.++.++|...+++.++       ..
T Consensus       426 -~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~  503 (559)
T KOG1155|consen  426 -ELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEID  503 (559)
T ss_pred             -hcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccc
Confidence             331 4468999999999999999999999999742  244668899999999999999999999999887       34


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      |....+...|..-+.+.+++++|.........
T Consensus       504 ~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  504 DETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             hHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            54455555688889999999999987766553

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

Probab=99.43  E-value=8.6e-11  Score=93.01  Aligned_cols=232  Identities=14%  Similarity=0.111  Sum_probs=179.2

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC-CCh------hhHHHHHH
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE-KNL------FCWNSIIE  115 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~------~~~~~li~  115 (331)
                      .|..=++.+ -+.+.++|.+.|-+|.+.. +.+..+.-+|.+.|.+.|.+|+|+.+-+.+.+ ||.      .+...|..
T Consensus        38 ~Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~  115 (389)
T COG2956          38 DYVKGLNFL-LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGR  115 (389)
T ss_pred             HHHhHHHHH-hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHH
Confidence            344334433 4578999999999999864 44677888999999999999999999988765 433      35566788


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc----HhHHHHHHHHHHHc
Q 043124          116 GLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE----VEHYGCMVDLLSKA  191 (331)
Q Consensus       116 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~  191 (331)
                      -|...|-++.|+.+|..+.+.+ ..-......|+..|-...+|++|+.+-+++. +.+-.+.    ...|.-|...+...
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~-k~~~q~~~~eIAqfyCELAq~~~~~  193 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLV-KLGGQTYRVEIAQFYCELAQQALAS  193 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHH-HcCCccchhHHHHHHHHHHHHHhhh
Confidence            8999999999999999998865 3445677789999999999999999999888 3332222    23456666666778


Q ss_pred             CCHHHHHHHHHhC-CCCCcHHHHH-HHHHHHhhcCCHHHHHHHHHHHHhcCCCCc-chHHHHHHHHHhcCCchHHHHHHH
Q 043124          192 GLLEDALELIRSS-KFQPNAVIWG-ALLGGCKLHRNLEIAHIAVNELMILEPNNS-GYCTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       192 ~~~~~a~~~~~~~-~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      .+.++|...+.+. ...|+..--+ .+.......|+++.|.+.++.+.+.+|+.. .+...|..+|...|+.++....+.
T Consensus       194 ~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~  273 (389)
T COG2956         194 SDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLR  273 (389)
T ss_pred             hhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            8999999999863 4555543333 444558899999999999999999888743 345678899999999999999999


Q ss_pred             HHHhcCCCCC
Q 043124          269 AMKELGIEKR  278 (331)
Q Consensus       269 ~m~~~~~~~~  278 (331)
                      ++.+....++
T Consensus       274 ~~~~~~~g~~  283 (389)
T COG2956         274 RAMETNTGAD  283 (389)
T ss_pred             HHHHccCCcc
Confidence            9887654443

>PRK12370 invasion protein regulator; Provisional

Probab=99.43  E-value=5.1e-11  Score=107.22  Aligned_cols=227  Identities=12%  Similarity=-0.028  Sum_probs=170.8

Q ss_pred             CHhhHHHHHHHHH-----ccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh---------hCCHHHHHHHHhhcCCC
Q 043124           40 DQVTMATVLSACA-----HLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK---------CGSLDRSLLVFFKLREK  105 (331)
Q Consensus        40 ~~~~~~~l~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~~~  105 (331)
                      +...|...+.+-.     ..++.++|...++++++.. +.+...|..+..++..         .+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            4455555555431     2245679999999998874 3345667666665542         24488999999987753


Q ss_pred             ---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHH
Q 043124          106 ---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHY  181 (331)
Q Consensus       106 ---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~  181 (331)
                         +..++..+...+...|++++|...|++..+.+ |.+...+..+...+...|++++|...+++..+.   .|+ ...+
T Consensus       334 dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~  409 (553)
T PRK12370        334 DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAG  409 (553)
T ss_pred             CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhH
Confidence               56788889999999999999999999999885 455677888889999999999999999999833   343 2233


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhCC--CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          182 GCMVDLLSKAGLLEDALELIRSSK--FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       182 ~~l~~~~~~~~~~~~a~~~~~~~~--~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      ..++..+...|++++|...+++..  ..|+ ...+..+..++...|+.++|...++++....|........+...|...|
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH
Confidence            344555777899999999998752  2354 4456667777889999999999999988888887777777888888888


Q ss_pred             CchHHHHHHHHHHhc
Q 043124          259 RWAEVTKIRVAMKEL  273 (331)
Q Consensus       259 ~~~~a~~~~~~m~~~  273 (331)
                        +.|...++.+.+.
T Consensus       490 --~~a~~~l~~ll~~  502 (553)
T PRK12370        490 --ERALPTIREFLES  502 (553)
T ss_pred             --HHHHHHHHHHHHH
Confidence              4788878777653

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

Probab=99.43  E-value=2.2e-11  Score=96.53  Aligned_cols=231  Identities=13%  Similarity=0.060  Sum_probs=194.4

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhh
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKC   89 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (331)
                      +-+.++|.+.|-+.+|...|+...+.  .|-+.||..|-.+|.+..++..|+.++.+-++. ++-++.......+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            45789999999999999999999886  677889999999999999999999999988876 455665566678889999


Q ss_pred             CCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHH
Q 043124           90 GSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFL  166 (331)
Q Consensus        90 g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  166 (331)
                      ++.++|.++|+...+.   ++.+...+...|.-.++++-|+..|+++.+.|+ -++..|+.+.-+|.-.+++|-+..-|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            9999999999988753   566666777788889999999999999999996 477888889999999999999999999


Q ss_pred             hhhhcCCCCCc--HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          167 SMTCGYSITPE--VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       167 ~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      +.. ..--.|+  ..+|-.+....+..|++.-|.+.|+-. .-.| +...++.|...-.+.|+++.|..++..+..+.|+
T Consensus       383 RAl-stat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~  461 (478)
T KOG1129|consen  383 RAL-STATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPD  461 (478)
T ss_pred             HHH-hhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcc
Confidence            887 3333344  457777888888999999999999853 2333 4778898888889999999999999999998887


Q ss_pred             Ccc
Q 043124          243 NSG  245 (331)
Q Consensus       243 ~~~  245 (331)
                      -..
T Consensus       462 m~E  464 (478)
T KOG1129|consen  462 MAE  464 (478)
T ss_pred             ccc
Confidence            443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.42  E-value=5.4e-11  Score=102.93  Aligned_cols=231  Identities=11%  Similarity=0.061  Sum_probs=176.5

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHC-----CC-CCCHhh-HHHHHHHHHccCCchHHHHHHHHHHHh-----CC--C
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNS-----GI-SPDQVT-MATVLSACAHLGALDLGREIHLYVMQI-----GF--D   73 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--~   73 (331)
                      +...|...|...|+++.|+.++++..+.     |. .|...+ .+.+...|...+++++|..+|+.++..     |-  +
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            3445899999999999999999988764     21 233333 344777889999999999999998764     21  1


Q ss_pred             CchhHHHHHHHHHHhhCCHHHHHHHHhhcCC----------CCh-hhHHHHHHHHHhCCCHHHHHHHHHHHHHc---CCC
Q 043124           74 IDVYIGSALVDMYAKCGSLDRSLLVFFKLRE----------KNL-FCWNSIIEGLAVHGFAHEALAMFDRMIYE---NVE  139 (331)
Q Consensus        74 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----------~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~  139 (331)
                      --..+++.|..+|.+.|++++|...+++..+          +.+ ..++.++..++..+++++|..+++...+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            2245788888899999999998887776542          122 25777888899999999999999877643   112


Q ss_pred             C----cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC----C--CCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-----
Q 043124          140 P----NGVTFISVLSACTHAGLVEEGRRRFLSMTCGY----S--ITPEVEHYGCMVDLLSKAGLLEDALELIRSS-----  204 (331)
Q Consensus       140 p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----  204 (331)
                      +    ...+++.+...|.+.|++++|..+++......    +  ..-....++.|...|.+.+++.+|.++|.+.     
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            2    34678899999999999999999999877422    1  1222567788899999999999888888752     


Q ss_pred             --C-CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          205 --K-FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       205 --~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                        | ..|+ ..+|..|...|...|+++.|.++.+.+..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence              2 3454 57899999999999999999999999875

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

Probab=99.41  E-value=1.3e-09  Score=97.19  Aligned_cols=280  Identities=13%  Similarity=0.073  Sum_probs=192.9

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS   91 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~   91 (331)
                      ........|++++|..++.+..+.. +.+...|..|..+|-+.|+.+++...+-.+.-.+ +-|...|..+.....+.|+
T Consensus       145 eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~  222 (895)
T KOG2076|consen  145 EANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGN  222 (895)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhccc
Confidence            3444555699999999999999875 5578899999999999999999988875554443 4467899999999999999


Q ss_pred             HHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHH----HHHHHHHHHhccCcHHHHHHH
Q 043124           92 LDRSLLVFFKLREKNL---FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGV----TFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        92 ~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      +++|.-.|.+..+.++   ..+-.-+..|-+.|+...|...|.++.....+.|-.    +.-..+..+...++-+.|.+.
T Consensus       223 i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~  302 (895)
T KOG2076|consen  223 INQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKA  302 (895)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            9999999998876443   344445678999999999999999999874222222    223345667777888999999


Q ss_pred             HHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC------------------------------CCCc-----
Q 043124          165 FLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK------------------------------FQPN-----  209 (331)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------------------------------~~p~-----  209 (331)
                      ++......+-..+...++.++..|.+...++.|...+....                              ..++     
T Consensus       303 le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~r  382 (895)
T KOG2076|consen  303 LEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIR  382 (895)
T ss_pred             HHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHh
Confidence            98887544444456677788888888887777765543210                              0111     


Q ss_pred             -------------------------------HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC-CcchHHHHHHHHHhc
Q 043124          210 -------------------------------AVIWGALLGGCKLHRNLEIAHIAVNELMILEPN-NSGYCTLLLNMYAEV  257 (331)
Q Consensus       210 -------------------------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~  257 (331)
                                                     ...|.-+..++...|+++.|.+++..+....+. +...|..++++|...
T Consensus       383 l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  383 LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence                                           122344445555566666666666665554432 233455566666666


Q ss_pred             CCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          258 SRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       258 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      |.+++|.+.|+...                           ...|++..+...|+.|+..++.
T Consensus       463 ~e~e~A~e~y~kvl---------------------------~~~p~~~D~Ri~Lasl~~~~g~  498 (895)
T KOG2076|consen  463 GEYEEAIEFYEKVL---------------------------ILAPDNLDARITLASLYQQLGN  498 (895)
T ss_pred             hhHHHHHHHHHHHH---------------------------hcCCCchhhhhhHHHHHHhcCC
Confidence            66666666666655                           4556777777777777665543

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

Probab=99.41  E-value=4.8e-10  Score=93.56  Aligned_cols=307  Identities=15%  Similarity=0.110  Sum_probs=214.4

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPD-QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      .+-...+-|.++|++++|++.|.+..+.  .|| +.-|.....+|...|+++.+.+.-...++.+ +.-+..+.--.+++
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN-PDYVKALLRRASAH  193 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-cHHHHHHHHHHHHH
Confidence            3455667789999999999999999985  677 6778888888999999999988887777653 11244555555566


Q ss_pred             HhhCCHHHHHH----------------------HHh---------hcCC------CC-----------------------
Q 043124           87 AKCGSLDRSLL----------------------VFF---------KLRE------KN-----------------------  106 (331)
Q Consensus        87 ~~~g~~~~a~~----------------------~~~---------~~~~------~~-----------------------  106 (331)
                      -..|++++|+.                      +++         .+.+      |.                       
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~  273 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKS  273 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCC
Confidence            66666666552                      010         0000      00                       


Q ss_pred             ----------------------------------------------------hhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043124          107 ----------------------------------------------------LFCWNSIIEGLAVHGFAHEALAMFDRMI  134 (331)
Q Consensus       107 ----------------------------------------------------~~~~~~li~~~~~~~~~~~a~~~~~~m~  134 (331)
                                                                          ..+...-...+.-.|+.-.|..-|+..+
T Consensus       274 ~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I  353 (606)
T KOG0547|consen  274 DKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAI  353 (606)
T ss_pred             ccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHH
Confidence                                                                0001111111334567777888888887


Q ss_pred             HcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHH
Q 043124          135 YENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVI  212 (331)
Q Consensus       135 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~  212 (331)
                      +.... +...|..+...|...++.++.++.|+....-.  +-++.+|..-.+.+.-.+++++|..-|++. .+.|+ ...
T Consensus       354 ~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld--p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~  430 (606)
T KOG0547|consen  354 KLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLD--PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYA  430 (606)
T ss_pred             hcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcC--CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHH
Confidence            76433 23337778888999999999999999998322  334678888888899999999999999874 46664 666


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC---CCccceEEeCC
Q 043124          213 WGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR---CPGSSWIEMER  289 (331)
Q Consensus       213 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~~~~~~  289 (331)
                      |-.+..+..+.+++++++..|++.++..|+.+..|+....++...++++.|.+.|+...+.-....   +.....|....
T Consensus       431 ~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~  510 (606)
T KOG0547|consen  431 YIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKAL  510 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhH
Confidence            777777778899999999999999999999999999999999999999999999999876543311   01111222222


Q ss_pred             EEEEeec-----------CCCCCCCchHHHHHHHHHHHHHHh
Q 043124          290 KVYQFAA-----------SDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       290 ~~~~~~~-----------~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      .+.++-.           .-+.+|....++..|+++--++++
T Consensus       511 l~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~  552 (606)
T KOG0547|consen  511 LVLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGK  552 (606)
T ss_pred             hhhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhh
Confidence            2222110           017888888888888887655543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.37  E-value=5.9e-10  Score=92.27  Aligned_cols=229  Identities=13%  Similarity=-0.019  Sum_probs=150.1

Q ss_pred             CChhHHHHHHHHHHHCC-CCCC--HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHH
Q 043124           20 KQFREALDAFNEMKNSG-ISPD--QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSL   96 (331)
Q Consensus        20 ~~~~~a~~~~~~m~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~   96 (331)
                      +..+.++.-+.++.... ..|+  ...|..+...+...|+.+.|...|+++++.. +.+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34456777777777542 1222  3457777778888899999999998888875 446788888889999999999999


Q ss_pred             HHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC
Q 043124           97 LVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS  173 (331)
Q Consensus        97 ~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  173 (331)
                      +.|++..+  | +..+|..++.++...|++++|.+.|++..+.+  |+..........+...++.++|...|.+..... 
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-  195 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-  195 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-
Confidence            98888754  3 45678888888888999999999999888764  332222222233445678889998887655221 


Q ss_pred             CCCcHhHHHHHHHHHHHcCCHH--HHHHHHHh-CCC----CC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCC-CCc
Q 043124          174 ITPEVEHYGCMVDLLSKAGLLE--DALELIRS-SKF----QP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEP-NNS  244 (331)
Q Consensus       174 ~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~-~~~----~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~  244 (331)
                       .|+...+ .+..  ...|+..  ++++.+.+ ...    .| ....|..+...+...|++++|...|+++++..| +..
T Consensus       196 -~~~~~~~-~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        196 -DKEQWGW-NIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             -CccccHH-HHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence             3332222 2332  2344443  33333332 111    12 235677888888899999999999999998886 444


Q ss_pred             chHHHHHHHHHh
Q 043124          245 GYCTLLLNMYAE  256 (331)
Q Consensus       245 ~~~~~l~~~~~~  256 (331)
                      .+-..++.....
T Consensus       272 e~~~~~~e~~~~  283 (296)
T PRK11189        272 EHRYALLELALL  283 (296)
T ss_pred             HHHHHHHHHHHH
Confidence            443444444433

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

Probab=99.37  E-value=3.7e-10  Score=101.34  Aligned_cols=267  Identities=10%  Similarity=0.038  Sum_probs=188.9

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHC---CCCCCH------hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNS---GISPDQ------VTMATVLSACAHLGALDLGREIHLYVMQIGFDI   74 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   74 (331)
                      +-....|.+...+...|++.+|...|.+.+..   ...+|.      .+-..+....-..++.+.|.+.+..+++.. +-
T Consensus       450 ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~  528 (1018)
T KOG2002|consen  450 IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PG  528 (1018)
T ss_pred             CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-ch
Confidence            34455677777777777777777777776654   112222      122234455556667777777777777653 22


Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCcHHHHHHHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN-VEPNGVTFISVLS  150 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~  150 (331)
                      -...|.-++......+...+|...+.....   .++.++..+...+.....|..|.+-|+...+.- ..+|.++...|.+
T Consensus       529 YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN  608 (1018)
T KOG2002|consen  529 YIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGN  608 (1018)
T ss_pred             hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhH
Confidence            233333333333344667777777776654   466788888888888888988888777766542 2367777767766


Q ss_pred             HHhc------------cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHH
Q 043124          151 ACTH------------AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGAL  216 (331)
Q Consensus       151 ~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l  216 (331)
                      .|..            .+..++|+++|.++.+..  +.+...-|.+.-.++..|++.+|.++|.+..  ..-...+|..+
T Consensus       609 ~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d--pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNl  686 (1018)
T KOG2002|consen  609 VYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND--PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNL  686 (1018)
T ss_pred             HHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC--cchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeH
Confidence            5542            256788999999988322  5577788888888999999999999998754  22345678889


Q ss_pred             HHHHhhcCCHHHHHHHHHHHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          217 LGGCKLHRNLEIAHIAVNELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       217 ~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+|+..|++-.|.+.|+..++  ..-+++.+...|.+++.+.|++.+|.+.....+..
T Consensus       687 ah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  687 AHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            9999999999999999999988  33466778889999999999999999888777654

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

Probab=99.37  E-value=2.8e-09  Score=95.93  Aligned_cols=269  Identities=12%  Similarity=0.055  Sum_probs=197.2

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC--CCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGIS--PDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      ..|.+..+.|.+.|...|++..+..+...+......  .-...|-.+.+++...|+++.|...|.+..+....-....+-
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~  346 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLV  346 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccccc
Confidence            456777888999999999999999999888765311  123457788999999999999999998777654221234455


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCC----CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHh
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHG----FAHEALAMFDRMIYENVEPNGVTFISVLSACT  153 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  153 (331)
                      -+...|.+.|+++.+...|+.+.+.   +..+..+|...|...+    ..+.|..++.+..+.- +-|...|..+...+-
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e  425 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLE  425 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHH
Confidence            6788999999999999999988653   5567778888887775    4577777777776653 556777777766655


Q ss_pred             ccCcHHHHHHHHHhhhh---cCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC------CCCcH------HHHHHHHH
Q 043124          154 HAGLVEEGRRRFLSMTC---GYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK------FQPNA------VIWGALLG  218 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~p~~------~~~~~l~~  218 (331)
                      ..+-+ .+...|.....   ..+-.+.+...|.+...+...|++++|...|++..      ..+|.      .+-..+..
T Consensus       426 ~~d~~-~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlar  504 (1018)
T KOG2002|consen  426 QTDPW-ASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLAR  504 (1018)
T ss_pred             hcChH-HHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHH
Confidence            44433 33555544331   22334667788999999999999999999887531      22332      23444566


Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..-..++.+.|.+.+..+++..|.....|..++.+-...++..+|...++...+.
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~  559 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNI  559 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhc
Confidence            6677889999999999999999998888888886666778889999999887754

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

Probab=99.36  E-value=1.8e-10  Score=96.06  Aligned_cols=218  Identities=14%  Similarity=0.106  Sum_probs=177.9

Q ss_pred             HHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHH
Q 043124           50 ACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEA  126 (331)
Q Consensus        50 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a  126 (331)
                      .+.-.|+.-.|..-|+..++....+ ...|--+..+|....+-++....|....+   .|+.+|..-...+.-.+++++|
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHH
Confidence            3456789999999999999875443 33477778889999999999999987764   3677899888888889999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CC
Q 043124          127 LAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SK  205 (331)
Q Consensus       127 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~  205 (331)
                      ..=|++.+..+ +-+...|.-+..+..+.+.+++++..|++.++++  +.-+..|+.....+...+++++|.+.|+. +.
T Consensus       414 ~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF--P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  414 IADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKKF--PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            99999999875 4567788888888889999999999999999654  55577899999999999999999999985 33


Q ss_pred             CCCc---------HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          206 FQPN---------AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       206 ~~p~---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +.|+         ....-.++.. .=.+++..|..+++++++++|.....|..|...-.+.|+.++|+++|++-..
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3333         2222222222 1238999999999999999999999999999999999999999999998653

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

Probab=99.35  E-value=2.5e-09  Score=87.63  Aligned_cols=229  Identities=10%  Similarity=0.022  Sum_probs=123.9

Q ss_pred             CCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHH
Q 043124           37 ISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSI  113 (331)
Q Consensus        37 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l  113 (331)
                      .+.|......+...+...|+.+.|+..|++....+ +-+........-.+.+.|++++...+...+...   ....|..-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~  306 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVH  306 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhh
Confidence            45566667777777777788888877777766543 112222333333345556666555554444322   22334444


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC-CcHhHHHHHHHHHHHcC
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT-PEVEHYGCMVDLLSKAG  192 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  192 (331)
                      +..+...++++.|+.+-++.++.+ +-+...|..-...+...++.++|.-.|+...   .+. .+...|..|+..|...|
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq---~Lap~rL~~Y~GL~hsYLA~~  382 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQ---MLAPYRLEIYRGLFHSYLAQK  382 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHH---hcchhhHHHHHHHHHHHHhhc
Confidence            444445555555555555555443 2233444444445555555555555555554   112 23455555555555555


Q ss_pred             CHHHHH------------------------------------HHHHh-CCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHH
Q 043124          193 LLEDAL------------------------------------ELIRS-SKFQPN-AVIWGALLGGCKLHRNLEIAHIAVN  234 (331)
Q Consensus       193 ~~~~a~------------------------------------~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  234 (331)
                      .+.+|.                                    .++++ +..+|+ ....+.+...|...|..+.+..+++
T Consensus       383 ~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe  462 (564)
T KOG1174|consen  383 RFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLE  462 (564)
T ss_pred             hHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHH
Confidence            555554                                    33332 234444 3344455555666666666666666


Q ss_pred             HHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          235 ELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       235 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +.+...|+.. ....|+..+...+.+++|.+.|....
T Consensus       463 ~~L~~~~D~~-LH~~Lgd~~~A~Ne~Q~am~~y~~AL  498 (564)
T KOG1174|consen  463 KHLIIFPDVN-LHNHLGDIMRAQNEPQKAMEYYYKAL  498 (564)
T ss_pred             HHHhhccccH-HHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            6666666633 33666666666666666666666655

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.35  E-value=3.6e-10  Score=93.55  Aligned_cols=213  Identities=11%  Similarity=0.001  Sum_probs=153.4

Q ss_pred             cCCchHHHHHHHHHHHhC-CCCc--hhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHH
Q 043124           54 LGALDLGREIHLYVMQIG-FDID--VYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEAL  127 (331)
Q Consensus        54 ~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~  127 (331)
                      .+..+.++.-+.+++... ..|+  ...|..+...|.+.|+.++|...|++..+   .+...|+.+...+...|++++|.
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            346677777777777542 2222  45678888899999999999999988764   35679999999999999999999


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC--
Q 043124          128 AMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK--  205 (331)
Q Consensus       128 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--  205 (331)
                      ..|++..+.. +-+..++..+...+...|++++|.+.|+...+.   .|+..........+...+++++|...+++..  
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            9999999864 335677888888899999999999999999833   4442222222223446788999999996532  


Q ss_pred             CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHH-------hcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          206 FQPNAVIWGALLGGCKLHRNLEIAHIAVNELM-------ILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       206 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      ..|+...+ .+.  ....|+...+ ..++.+.       +..|.....|..++..+.+.|++++|...|++..+.+
T Consensus       195 ~~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 LDKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             CCccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            23332222 222  2234554433 2444443       3456667789999999999999999999999998654

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

Probab=99.34  E-value=6.5e-09  Score=89.94  Aligned_cols=262  Identities=10%  Similarity=-0.013  Sum_probs=217.6

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ..+|+.-...|.+.+.++-|..+|....+.- +-+...|......--..|..++...+++++... .+-....|-....-
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake  593 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKE  593 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHH
Confidence            3578888889999999999999999998863 446677877777777789999999999999887 34466677777888


Q ss_pred             HHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           86 YAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      +...|++..|..++...-+   .+...|.+-+.....+.+++.|..+|.+....  .|+...|..-+...--.++.++|.
T Consensus       594 ~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            8899999999999887754   25568999999999999999999999998774  678888877777777789999999


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      +++++..+.+  +.-...|..+.+.+-+.++.+.|.+.|.. ....|+ +..|..|...--+.|++-+|..++++..-.+
T Consensus       672 rllEe~lk~f--p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN  749 (913)
T KOG0495|consen  672 RLLEEALKSF--PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHHhC--CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            9999988543  22356788888889999999999988875 445565 5667777777778889999999999999999


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      |.+...|...|++-.+.|+.+.|..++.+.+..
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999988877653

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

Probab=99.33  E-value=5.8e-09  Score=90.22  Aligned_cols=266  Identities=8%  Similarity=0.010  Sum_probs=149.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      |-...+.+-..|+...|..++.+..+.. +.+...|-..+..-.....++.|..+|.+....  .|+..+|..-++...-
T Consensus       587 wlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~  663 (913)
T KOG0495|consen  587 WLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERY  663 (913)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHH
Confidence            3333444444555555555555555543 224455555555555555555555555544442  2344444444444444


Q ss_pred             hCCHHHHHHHHhhcCCC--C-hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           89 CGSLDRSLLVFFKLREK--N-LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~~--~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      .++.++|.+++++..+.  + ...|-.+...+-+.++.+.|.+.|..-.+. .|-....|..+...--+.|..-.|..++
T Consensus       664 ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~il  742 (913)
T KOG0495|consen  664 LDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSIL  742 (913)
T ss_pred             hhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHH
Confidence            45555555555544432  1 123444444555555555555554443322 2222333333333334444555555555


Q ss_pred             HhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHH----------------------------------HHHhCCCCCcHH
Q 043124          166 LSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALE----------------------------------LIRSSKFQPNAV  211 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~----------------------------------~~~~~~~~p~~~  211 (331)
                      ++..-++  +-+...|-..|++-.+.|+.+.|..                                  -+++.  .-|..
T Consensus       743 drarlkN--Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkc--e~dph  818 (913)
T KOG0495|consen  743 DRARLKN--PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKC--EHDPH  818 (913)
T ss_pred             HHHHhcC--CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhc--cCCch
Confidence            5544221  3344455555555555555554443                                  33333  23444


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceE
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWI  285 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  285 (331)
                      ....+...+-...++++|.+.|.+++..+|++-.+|..+...+.+.|.-+.-.++++.....  .|. -|..|.
T Consensus       819 Vllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~-hG~~W~  889 (913)
T KOG0495|consen  819 VLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPT-HGELWQ  889 (913)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCC-CCcHHH
Confidence            55566667888899999999999999999999999999999999999988888999887743  444 444453

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

Probab=99.31  E-value=1.6e-09  Score=89.83  Aligned_cols=150  Identities=12%  Similarity=0.117  Sum_probs=102.6

Q ss_pred             CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH----------------------------------HHHH
Q 043124          120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG----------------------------------RRRF  165 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a----------------------------------~~~~  165 (331)
                      .|++++|.+.|.+.+..+-..+...||. .-.+-..|+.++|                                  ++++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~  581 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELL  581 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHH
Confidence            5677777777777766543333333332 2223344444444                                  4444


Q ss_pred             HhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CC-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          166 LSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SK-FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      -+..  .-++.|+.....|...|-+.|+-..|+++.-+ -. +.-+..+...|...|....-+++++.+|+++.-+.|+.
T Consensus       582 ~q~~--slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~  659 (840)
T KOG2003|consen  582 MQAN--SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQ  659 (840)
T ss_pred             HHhc--ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccH
Confidence            4433  12344577777888888888888888777543 33 44467777778777888888999999999998899996


Q ss_pred             cchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          244 SGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       244 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ...-..+..++.+.|++.+|.++++....
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            65555566778889999999999998864

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

Probab=99.29  E-value=9e-10  Score=83.39  Aligned_cols=163  Identities=10%  Similarity=0.028  Sum_probs=99.6

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      +...|...|.+.|+...|..-+++.++.. |.+..++..+...|.+.|..+.|.+.|++.....  +-+..+.|.....+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~--p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA--PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC--CCccchhhhhhHHH
Confidence            34455566666666666666666666653 3345556666666666666666666666666211  22355566666666


Q ss_pred             HHcCCHHHHHHHHHhCCCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHH
Q 043124          189 SKAGLLEDALELIRSSKFQPN----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      |..|++++|...|++.-..|+    ..+|..+.-+..+.|+.+.|...+++.++.+|+.+.....+.....+.|++-.|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            666666666666665322221    3455556556666667777777777776666666666666666666667776666


Q ss_pred             HHHHHHHhcC
Q 043124          265 KIRVAMKELG  274 (331)
Q Consensus       265 ~~~~~m~~~~  274 (331)
                      .+++.....+
T Consensus       194 ~~~~~~~~~~  203 (250)
T COG3063         194 LYLERYQQRG  203 (250)
T ss_pred             HHHHHHHhcc
Confidence            6666665444

>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=99.28  E-value=7.3e-09  Score=90.87  Aligned_cols=259  Identities=12%  Similarity=0.044  Sum_probs=183.7

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhh---
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKC---   89 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---   89 (331)
                      ...+...|++++|++.++.-.+. +......+......+.+.|+.++|..+|..+++.+ +.+..-|..+..+..-.   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccc
Confidence            34567889999999999886654 44344555677888999999999999999999997 44666666666666333   


Q ss_pred             --CCHHHHHHHHhhcCCCCh--hhHHHHHHHHHhCCCH-HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHH
Q 043124           90 --GSLDRSLLVFFKLREKNL--FCWNSIIEGLAVHGFA-HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        90 --g~~~~a~~~~~~~~~~~~--~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  164 (331)
                        .+.+...++|+++.+.-+  .+...+.-.+.....+ ..+...+..+...|+|+   +|+.+-..|......+-...+
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence              256777888887764322  2222222222221223 34556667778888654   455555566655555555555


Q ss_pred             HHhhhhcC-------------CCCCcH--hHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcCCHH
Q 043124          165 FLSMTCGY-------------SITPEV--EHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHRNLE  227 (331)
Q Consensus       165 ~~~~~~~~-------------~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~  227 (331)
                      +.......             .-+|+.  .++..+.+.|-..|++++|++++++ +...|+ +..|..-.+.+-+.|+++
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHH
Confidence            55543211             113444  3456667888999999999999996 556776 677777888899999999


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          228 IAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       228 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      +|.+.++.+..+++.+.-.-+-.+..+.+.|++++|.+++..+-..+..
T Consensus       246 ~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~  294 (517)
T PF12569_consen  246 EAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVD  294 (517)
T ss_pred             HHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCC
Confidence            9999999999999988777667788889999999999999998766653

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 [], [].

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

Probab=99.26  E-value=7.2e-09  Score=78.60  Aligned_cols=200  Identities=14%  Similarity=-0.014  Sum_probs=122.4

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHh
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAV  119 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~  119 (331)
                      +..-|.-.|...|+...|..-++++++.. +.+..+|..+...|.+.|+.+.|.+.|++..+   .+..+.|.....+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHh
Confidence            34455556667777777777777776664 33455666666677777777777777765543   244566666667777


Q ss_pred             CCCHHHHHHHHHHHHHcC-CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHH
Q 043124          120 HGFAHEALAMFDRMIYEN-VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDAL  198 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  198 (331)
                      .|++++|...|++....- ..--..+|..+.-+..+.|+.+.|...|++..+..  +-.......+.......|++..|.
T Consensus       116 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         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhcccchHHH
Confidence            777777777777666542 11223456666666666777777777777766221  112334555666666777777776


Q ss_pred             HHHHhC--CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc
Q 043124          199 ELIRSS--KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG  245 (331)
Q Consensus       199 ~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  245 (331)
                      .+++..  +..++..+....|+.-...|+.+.+.++=..+.+..|.+..
T Consensus       194 ~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e  242 (250)
T COG3063         194 LYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEE  242 (250)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHH
Confidence            666542  23356666666666666677777776666666666666443

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

Probab=99.25  E-value=4.6e-09  Score=89.30  Aligned_cols=246  Identities=11%  Similarity=0.012  Sum_probs=194.0

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +++...+-.=|.++...|+..+-..+=.++.+. .+-.+.+|-++.--|...|+..+|++.|.+...... .-...|-.+
T Consensus       275 pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~-~fgpaWl~f  352 (611)
T KOG1173|consen  275 PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDP-TFGPAWLAF  352 (611)
T ss_pred             CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCc-cccHHHHHH
Confidence            345556666688999999999988888888887 355778899998888888999999999998877642 235678899


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ...|+-.|..|+|+..+....+   .....+--+.--|.+.++.+.|.+.|.+.... .|.|+...+-+.-.....+.+.
T Consensus       353 ghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~  431 (611)
T KOG1173|consen  353 GHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYP  431 (611)
T ss_pred             hHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhH
Confidence            9999999999999998876543   22233444556788899999999999999876 3567777777777777889999


Q ss_pred             HHHHHHHhhhhcC-CCC----CcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCcHHHHHHHHHHHhhcCCHHHHHHH
Q 043124          160 EGRRRFLSMTCGY-SIT----PEVEHYGCMVDLLSKAGLLEDALELIRSS-KF-QPNAVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       160 ~a~~~~~~~~~~~-~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      +|..+|+.....- .+.    --..+++.|..+|.+.+.+++|+..+++. .. +-+..++.++.-.+...|+++.|.+.
T Consensus       432 ~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~  511 (611)
T KOG1173|consen  432 EALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDH  511 (611)
T ss_pred             HHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHH
Confidence            9999998876211 111    12346888999999999999999999973 33 44788889998899999999999999


Q ss_pred             HHHHHhcCCCCcchHHHHH
Q 043124          233 VNELMILEPNNSGYCTLLL  251 (331)
Q Consensus       233 ~~~~~~~~p~~~~~~~~l~  251 (331)
                      |.+++.+.|++..+-..|.
T Consensus       512 fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  512 FHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHhcCCccHHHHHHHH
Confidence            9999999999876634333

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

Probab=99.24  E-value=1.2e-09  Score=97.32  Aligned_cols=249  Identities=13%  Similarity=0.104  Sum_probs=183.3

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      .||.+||..+|..||..|+.+.|- +|.-|+-...+.+...|+.++.+....++.+.+.           .|...+|..|
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~L   89 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTNL   89 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHHH
Confidence            488899999999999999999998 9999988888888999999999999999888776           6788999999


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYE-NVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      ..+|...||+.- .+..++       -...+...+...|.-.....++..+.-. +.-||..+   .+......|-++.+
T Consensus        90 l~ayr~hGDli~-fe~veq-------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaql  158 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQ-------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQL  158 (1088)
T ss_pred             HHHHHhccchHH-HHHHHH-------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHH
Confidence            999999999876 222222       1223444555666656566665553322 24455544   44456667888888


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHH-HHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLL-SKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      .+++..+-......|...    .++-+ .....+++-....+...-.|+..++..++.+....|+.+.|..++.+|.+.+
T Consensus       159 lkll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~g  234 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKG  234 (1088)
T ss_pred             HHHHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcC
Confidence            888877763222223222    12222 2334555555555555446999999999999999999999999999999844


Q ss_pred             -CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCcc
Q 043124          241 -PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGS  282 (331)
Q Consensus       241 -p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  282 (331)
                       |-..++|..|+.+   .|+..-+..+++.|.+.|+.|+ +..
T Consensus       235 fpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~-seT  273 (1088)
T KOG4318|consen  235 FPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPG-SET  273 (1088)
T ss_pred             CCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCC-cch
Confidence             7777777777665   8888899999999999999998 444

>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=99.21  E-value=6.9e-10  Score=90.72  Aligned_cols=246  Identities=10%  Similarity=0.037  Sum_probs=164.8

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      ++.+.-.|++..++.-.+ ........+......+.+++...|..+.++   .++.... .|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            556667888988886655 332222223345556778888888876543   3443433 66666666666555544556


Q ss_pred             HHHHHHHhhcC-CC----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHh
Q 043124           93 DRSLLVFFKLR-EK----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLS  167 (331)
Q Consensus        93 ~~a~~~~~~~~-~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  167 (331)
                      +.+..-+++.. ++    +..........+...|++++|++++.+-      .+.......+..+.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66666665543 22    2222333345567789999999888652      3566677788889999999999999999


Q ss_pred             hhhcCCCCCcHhHHHHHHHHHHH----cCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCC
Q 043124          168 MTCGYSITPEVEHYGCMVDLLSK----AGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEP  241 (331)
Q Consensus       168 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  241 (331)
                      |. +.  ..| .+...+..++..    .+.+.+|..+|+++.  ..+++.+.+.+..+....|++++|.+++++++..+|
T Consensus       157 ~~-~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  157 MQ-QI--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HH-CC--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HH-hc--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            98 32  334 333345554432    347899999999864  457788888888889999999999999999999999


Q ss_pred             CCcchHHHHHHHHHhcCCc-hHHHHHHHHHHhc
Q 043124          242 NNSGYCTLLLNMYAEVSRW-AEVTKIRVAMKEL  273 (331)
Q Consensus       242 ~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~  273 (331)
                      +++.+...++.+....|+. +.+.+++.++...
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            9999988999988888888 5677788887643

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.

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

Probab=99.18  E-value=8.7e-08  Score=80.20  Aligned_cols=266  Identities=12%  Similarity=0.108  Sum_probs=193.1

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC---chhHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDI---DVYIG   79 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~   79 (331)
                      +|+..+|++.|+.=.+.+.++.|..+|++..-.  .|+..+|-.....--+.|....+..+++.+.+. +..   +...+
T Consensus       171 ~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~-~~~d~~~e~lf  247 (677)
T KOG1915|consen  171 EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEF-LGDDEEAEILF  247 (677)
T ss_pred             CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-hhhHHHHHHHH
Confidence            588888999998888888889999988888764  578888877777777888888888888877654 111   12233


Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcC--------------------------------------------CC---ChhhHHH
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLR--------------------------------------------EK---NLFCWNS  112 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~--------------------------------------------~~---~~~~~~~  112 (331)
                      .+....-.++..++.|..+|+-..                                            +.   |-.+|--
T Consensus       248 vaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfd  327 (677)
T KOG1915|consen  248 VAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFD  327 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCchHHHH
Confidence            333333344455555554443211                                            01   2346777


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCcH-------HHHHHHHHH---HhccCcHHHHHHHHHhhhhcCCCCCcHhHHH
Q 043124          113 IIEGLAVHGFAHEALAMFDRMIYENVEPNG-------VTFISVLSA---CTHAGLVEEGRRRFLSMTCGYSITPEVEHYG  182 (331)
Q Consensus       113 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  182 (331)
                      .+..--..|+.+...++|++.+.. ++|-.       ..|.-+=-+   -....+.+.+.++|+... + -|+....|+.
T Consensus       328 ylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l-~-lIPHkkFtFa  404 (677)
T KOG1915|consen  328 YLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACL-D-LIPHKKFTFA  404 (677)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH-h-hcCcccchHH
Confidence            777777889999999999999876 56632       122211111   135688999999999988 3 3444455655


Q ss_pred             HHHHHH----HHcCCHHHHHHHHHh-CCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc
Q 043124          183 CMVDLL----SKAGLLEDALELIRS-SKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV  257 (331)
Q Consensus       183 ~l~~~~----~~~~~~~~a~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  257 (331)
                      .+--.|    .++.++..|.+++.. +|..|...+|...|..-.+.++++.+..++++.++.+|.+..+|......-...
T Consensus       405 KiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~kyaElE~~L  484 (677)
T KOG1915|consen  405 KIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKYAELETSL  484 (677)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHh
Confidence            544444    578899999999875 788899999999999989999999999999999999999888888888888888


Q ss_pred             CCchHHHHHHHHHHhcC
Q 043124          258 SRWAEVTKIRVAMKELG  274 (331)
Q Consensus       258 g~~~~a~~~~~~m~~~~  274 (331)
                      |+.+.|..+|+-.....
T Consensus       485 gdtdRaRaifelAi~qp  501 (677)
T KOG1915|consen  485 GDTDRARAIFELAISQP  501 (677)
T ss_pred             hhHHHHHHHHHHHhcCc
Confidence            88888888888776543

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

Probab=99.18  E-value=6.6e-09  Score=88.62  Aligned_cols=251  Identities=14%  Similarity=0.099  Sum_probs=184.9

Q ss_pred             HHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHH
Q 043124           51 CAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEAL  127 (331)
Q Consensus        51 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~  127 (331)
                      +.+.|++.+|.-.|+...+.. |-+...|.-|.......++-..|+..+++..+-   |..+.-.|.-.|...|.-..|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            456678888888888888775 447888888888888888888888888877653   5567777777888888888888


Q ss_pred             HHHHHHHHcCCC--------CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHH
Q 043124          128 AMFDRMIYENVE--------PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALE  199 (331)
Q Consensus       128 ~~~~~m~~~~~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  199 (331)
                      ..++.=+....+        ++..+-..  ..+.......+..++|-++....+..+|+.++..|.-.|--.|++++|.+
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            888776543211        00000000  12233344556666777766566656788888989889999999999999


Q ss_pred             HHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCC
Q 043124          200 LIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEK  277 (331)
Q Consensus       200 ~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  277 (331)
                      +|+. +.++| |...||.|...++...+.++|...|++++++.|........|+..|...|.+++|...|=+.+...-.-
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks  531 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKS  531 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcc
Confidence            9996 56778 578899999999999999999999999999999999999999999999999999999887776543221


Q ss_pred             CCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhc
Q 043124          278 RCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                      .                ...+..++ +..++..|+.....|+..
T Consensus       532 ~----------------~~~~~~~~-se~iw~tLR~als~~~~~  558 (579)
T KOG1125|consen  532 R----------------NHNKAPMA-SENIWQTLRLALSAMNRS  558 (579)
T ss_pred             c----------------ccccCCcc-hHHHHHHHHHHHHHcCCc
Confidence            1                00011122 567888888766666543

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

Probab=99.11  E-value=5.4e-08  Score=80.01  Aligned_cols=287  Identities=11%  Similarity=0.019  Sum_probs=186.4

Q ss_pred             HHHHHCCCCCCHhhHHHHHHHHHc--cCCchHHHHHHHHHHH-hCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCC
Q 043124           30 NEMKNSGISPDQVTMATVLSACAH--LGALDLGREIHLYVMQ-IGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKN  106 (331)
Q Consensus        30 ~~m~~~~~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  106 (331)
                      ..|-...+.|+-.+....+.+++.  .++...+.+.+-.+.. .-++.++.....+..++...|+.++|+..|++...-|
T Consensus       183 ~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d  262 (564)
T KOG1174|consen  183 LVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN  262 (564)
T ss_pred             hhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC
Confidence            355555566666666666666543  3444445554433333 3366788899999999999999999999999887655


Q ss_pred             hhh---HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHH
Q 043124          107 LFC---WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGC  183 (331)
Q Consensus       107 ~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  183 (331)
                      +.+   .....-.+.+.|+.+....+...+.... .-+...|-.-+......++++.|..+-++.+...  +-+...+-.
T Consensus       263 py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~--~r~~~alil  339 (564)
T KOG1174|consen  263 PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE--PRNHEALIL  339 (564)
T ss_pred             hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC--cccchHHHh
Confidence            443   3344556778899999998888887652 2344444444555667889999999988887221  223334433


Q ss_pred             HHHHHHHcCCHHHHHHHHHhCC-CCC-cHHHHHHHHHHHhhcCCHHHHHH------------------------------
Q 043124          184 MVDLLSKAGLLEDALELIRSSK-FQP-NAVIWGALLGGCKLHRNLEIAHI------------------------------  231 (331)
Q Consensus       184 l~~~~~~~~~~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~------------------------------  231 (331)
                      =..++...|+.++|.--|+... +.| +...|.-|+.+|...|++.+|.-                              
T Consensus       340 KG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~  419 (564)
T KOG1174|consen  340 KGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRM  419 (564)
T ss_pred             ccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchh
Confidence            3456788999999988888643 454 67888889988888777765544                              


Q ss_pred             ------HHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCC-Cccce--E-----EeCCEEEEeecC
Q 043124          232 ------AVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRC-PGSSW--I-----EMERKVYQFAAS  297 (331)
Q Consensus       232 ------~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~--~-----~~~~~~~~~~~~  297 (331)
                            ++++.+.+.|....+...+...+...|+.++++.++++....  .+++ .+.-.  +     +.......+...
T Consensus       420 rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~A  497 (564)
T KOG1174|consen  420 REKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKA  497 (564)
T ss_pred             HHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence                  444445566666666677888888999999999998887643  2220 00000  0     000011111112


Q ss_pred             CCCCCCchHHHHHHHHHHHHHHhc
Q 043124          298 DKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       298 ~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                      -..+|++.....-+..+-+.+++.
T Consensus       498 Lr~dP~~~~sl~Gl~~lEK~~~~~  521 (564)
T KOG1174|consen  498 LRQDPKSKRTLRGLRLLEKSDDES  521 (564)
T ss_pred             HhcCccchHHHHHHHHHHhccCCC
Confidence            277888888888877776666543

>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=99.10  E-value=1.1e-08  Score=83.66  Aligned_cols=227  Identities=13%  Similarity=0.051  Sum_probs=152.3

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC-CchhHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFD-IDVYIGSALVDMY   86 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~   86 (331)
                      ..--+.+++...|+++.++   .+..+.. .|.......+...+....+-+.+..-+++....... .+..+.......+
T Consensus        37 ~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~  112 (290)
T PF04733_consen   37 RDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATIL  112 (290)
T ss_dssp             HHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            3445678888888877544   4444433 666666666655554434444444444333323222 2333333344567


Q ss_pred             HhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHh----ccCcHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACT----HAGLVEEGR  162 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~----~~~~~~~a~  162 (331)
                      ...|++++|+++++..  .+.......+..|.+.++++.|.+.++.|.+.+  .|... ..+..++.    ..+.+.+|.
T Consensus       113 ~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l-~qLa~awv~l~~g~e~~~~A~  187 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDSIL-TQLAEAWVNLATGGEKYQDAF  187 (290)
T ss_dssp             CCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHHH-HHHHHHHHHHHHTTTCCCHHH
T ss_pred             HHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHH-HHHHHHHHHHHhCchhHHHHH
Confidence            7789999999988876  566777788899999999999999999998763  34333 33444433    345789999


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCH-HHHHHHHHHHHhc
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNL-EIAHIAVNELMIL  239 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  239 (331)
                      .+|+++..+  ..+++.+.+.+..++...|++++|.+++.+ +...| +..+...++.+....|+. +.+.+++..+...
T Consensus       188 y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  188 YIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999999843  467888999999999999999999999987 44445 466777777777777777 7788999999999


Q ss_pred             CCCCcc
Q 043124          240 EPNNSG  245 (331)
Q Consensus       240 ~p~~~~  245 (331)
                      .|+++.
T Consensus       266 ~p~h~~  271 (290)
T PF04733_consen  266 NPNHPL  271 (290)
T ss_dssp             TTTSHH
T ss_pred             CCCChH
Confidence            998543

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.

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

Probab=99.09  E-value=3.2e-07  Score=78.51  Aligned_cols=258  Identities=10%  Similarity=-0.054  Sum_probs=132.9

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHH----ccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhh
Q 043124           14 TCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACA----HLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKC   89 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (331)
                      ..+...|++++|..++++..+.. +.|...+.. ...+.    ..+..+.+.+.++. .....+........+...+...
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHc
Confidence            34456677777777777776652 223333332 11222    23344444444433 1111122233444555667777


Q ss_pred             CCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCcH--HHHHHHHHHHhccCcHHHHHH
Q 043124           90 GSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENV-EPNG--VTFISVLSACTHAGLVEEGRR  163 (331)
Q Consensus        90 g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~ll~~~~~~~~~~~a~~  163 (331)
                      |++++|.+.+++..+.   +...+..+...+...|++++|...+++...... .|+.  ..+..+...+...|++++|..
T Consensus       128 G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         128 GQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            7777777777766542   445667777777777888888877777766431 1222  234456667777788888888


Q ss_pred             HHHhhhhcCCCCCcHhHH-H--HHHHHHHHcCCHHHHHHH--H-Hh---C-CCCCcHHHHHHHHHHHhhcCCHHHHHHHH
Q 043124          164 RFLSMTCGYSITPEVEHY-G--CMVDLLSKAGLLEDALEL--I-RS---S-KFQPNAVIWGALLGGCKLHRNLEIAHIAV  233 (331)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~~~~~~a~~~--~-~~---~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  233 (331)
                      ++++........+..... +  .++..+...|....+.+.  + ..   . ..............++...|+.+.|...+
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         208 IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            777765221111111111 1  222222333322222221  1 11   1 00011111123444567777888888888


Q ss_pred             HHHHhcC-C---C-----CcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          234 NELMILE-P---N-----NSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       234 ~~~~~~~-p---~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      +.+.... .   .     ..........++...|++++|.+.+.+....+
T Consensus       288 ~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         288 AALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            7776511 1   1     12222334455667888888888877766543

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.

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

Probab=99.08  E-value=3.7e-08  Score=91.92  Aligned_cols=214  Identities=11%  Similarity=0.072  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC--------ChhhHHHHHHHHHhCCCHHHHHHHH
Q 043124           59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK--------NLFCWNSIIEGLAVHGFAHEALAMF  130 (331)
Q Consensus        59 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~li~~~~~~~~~~~a~~~~  130 (331)
                      .|.+ |+..... -|-+...|-..|......+++++|.+++++....        -.-.|.++++.....|.-+...++|
T Consensus      1443 saeD-ferlvrs-sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVF 1520 (1710)
T KOG1070|consen 1443 SAED-FERLVRS-SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVF 1520 (1710)
T ss_pred             CHHH-HHHHHhc-CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHH
Confidence            4444 3333333 2445677888999999999999999999987642        2347888888888888899999999


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc
Q 043124          131 DRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN  209 (331)
Q Consensus       131 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~  209 (331)
                      +++.+..  -.-..|..|...|.+.+..++|.++|+.|.++++  .....|...+..+.+..+-++|..++.+ +..-|.
T Consensus      1521 eRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk 1596 (1710)
T KOG1070|consen 1521 ERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPK 1596 (1710)
T ss_pred             HHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcch
Confidence            9998862  2345677899999999999999999999998776  5677899999999999999999999986 444443


Q ss_pred             ---HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          210 ---AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       210 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                         .......+..-.+.|+.+++..+|+..+.-.|.....|..+++.-.+.|+.+.++.+|++..+.++.+-
T Consensus      1597 ~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1597 QEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             hhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence               445555666677899999999999999999999999999999999999999999999999999988765

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

Probab=99.06  E-value=1.8e-06  Score=73.90  Aligned_cols=268  Identities=12%  Similarity=0.006  Sum_probs=171.7

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCC-CCCHh-hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH-
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGI-SPDQV-TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA-   81 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-   81 (331)
                      ....|..+...+...|+.+.+...+....+... .++.. ........+...|++++|..++++..+.. +.+...+.. 
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~   83 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLH   83 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHh
Confidence            345577777778888889998777777665422 22221 22233445677899999999999998874 334444442 


Q ss_pred             --HHHHHHhhCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC
Q 043124           82 --LVDMYAKCGSLDRSLLVFFKLREKN---LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAG  156 (331)
Q Consensus        82 --l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  156 (331)
                        +.......|..+.+.+.+......+   ......+...+...|++++|...+++..+.. +.+...+..+...+...|
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence              2222223456666666666533222   2345566678899999999999999999875 455677788888999999


Q ss_pred             cHHHHHHHHHhhhhcCCCCCcH--hHHHHHHHHHHHcCCHHHHHHHHHhCC-CCC--c-HHHH-H--HHHHHHhhcCCHH
Q 043124          157 LVEEGRRRFLSMTCGYSITPEV--EHYGCMVDLLSKAGLLEDALELIRSSK-FQP--N-AVIW-G--ALLGGCKLHRNLE  227 (331)
Q Consensus       157 ~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p--~-~~~~-~--~l~~~~~~~~~~~  227 (331)
                      ++++|...+++........++.  ..|..+...+...|++++|..++++.. ..|  . .... +  .++..+...|...
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~  242 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVD  242 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCC
Confidence            9999999999988432222332  345578888999999999999999852 223  1 2111 1  2233344444433


Q ss_pred             HHHHH--H-HHHHhcCCCCcchH--HHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          228 IAHIA--V-NELMILEPNNSGYC--TLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       228 ~a~~~--~-~~~~~~~p~~~~~~--~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .+.++  + .......|.....+  .....++...|+.+.|..+++.+....
T Consensus       243 ~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         243 VGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             hHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            33333  1 11111112222222  356778889999999999999987643

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

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

Probab=98.99  E-value=2.1e-06  Score=69.34  Aligned_cols=190  Identities=14%  Similarity=0.108  Sum_probs=120.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHH---HHHHHccCCchHHHHHHHHHHHhCCCCch-hHHHHHHHHH
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATV---LSACAHLGALDLGREIHLYVMQIGFDIDV-YIGSALVDMY   86 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~   86 (331)
                      -|.+.+...|++..|+.-|....+.    |+..|..+   ...|...|+...|+.-++..++.  +||- ..-..-...+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhh
Confidence            3556677788888888888887754    33444443   34667778888888888887775  4442 2222345567


Q ss_pred             HhhCCHHHHHHHHhhcCCCCh------h------------hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNL------F------------CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISV  148 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~------~------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  148 (331)
                      .+.|.+++|..=|+.+.+.++      .            .....+..+...|+...|++....+++.. +-+...+..-
T Consensus       117 lK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~R  195 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQAR  195 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHH
Confidence            788888888888887764322      1            12223444556788888888888887763 5566677777


Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN  209 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~  209 (331)
                      ..+|...|++..|+.-++... +.. .-++...--+...+...|+.+.++..+++ +.+.||
T Consensus       196 akc~i~~~e~k~AI~Dlk~as-kLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpd  255 (504)
T KOG0624|consen  196 AKCYIAEGEPKKAIHDLKQAS-KLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPD  255 (504)
T ss_pred             HHHHHhcCcHHHHHHHHHHHH-hcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcc
Confidence            777788888887777666665 222 12233333455566666666666665554 334444

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

Probab=98.99  E-value=1.9e-06  Score=72.39  Aligned_cols=256  Identities=11%  Similarity=0.026  Sum_probs=190.6

Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHH
Q 043124           17 SQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSL   96 (331)
Q Consensus        17 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~   96 (331)
                      -.++++..|..+|+..+.... -+...|.--+..-.+...+..|..+|+.+... +|.-...|-..+.+--..|++..|.
T Consensus        84 esq~e~~RARSv~ERALdvd~-r~itLWlkYae~Emknk~vNhARNv~dRAvt~-lPRVdqlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVDY-RNITLWLKYAEFEMKNKQVNHARNVWDRAVTI-LPRVDQLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh-cchHHHHHHHHHHHHHHhcccHHHH
Confidence            345677889999999987653 35666666677777888999999999999887 3333445666677777889999999


Q ss_pred             HHHhhcC--CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCC
Q 043124           97 LVFFKLR--EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSI  174 (331)
Q Consensus        97 ~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  174 (331)
                      ++|++-.  +|+..+|++.|..-.+-+.++.|..+|++.+-.  .|++.+|......-.+.|+...|..+|....+..|-
T Consensus       162 qiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  162 QIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            9999765  689999999999999999999999999998874  599999999998889999999999999998854432


Q ss_pred             C-CcHhHHHHHHHHHHHcCCHHHHHHHHHh----CCCCCcHHHHHHHHHHHhhcCCH---HHHHH-----HHHHHHhcCC
Q 043124          175 T-PEVEHYGCMVDLLSKAGLLEDALELIRS----SKFQPNAVIWGALLGGCKLHRNL---EIAHI-----AVNELMILEP  241 (331)
Q Consensus       175 ~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~p~~~~~~~l~~~~~~~~~~---~~a~~-----~~~~~~~~~p  241 (331)
                      . .+...+.+....-.+++.++.|.-+++-    ++-.-....|..+...--+-|+.   +.+.-     -++..++.+|
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np  319 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP  319 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC
Confidence            1 1233445555555567888888888763    33222244444444433344443   43332     3445566889


Q ss_pred             CCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCC
Q 043124          242 NNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEK  277 (331)
Q Consensus       242 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  277 (331)
                      -+..+|...++.-...|+.+...++|++.... ++|
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp  354 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPP  354 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCc
Confidence            99999999999999999999999999998754 444

>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=98.98  E-value=3.4e-07  Score=80.58  Aligned_cols=225  Identities=11%  Similarity=0.062  Sum_probs=158.3

Q ss_pred             HHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCCh--hh-HHHHHHHHHh----
Q 043124           47 VLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNL--FC-WNSIIEGLAV----  119 (331)
Q Consensus        47 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~-~~~li~~~~~----  119 (331)
                      ....+...|++++|++.++.-.+. +.............+.+.|+.++|..++..+.+.|+  .. |..+..+..-    
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccc
Confidence            344567889999999999876555 455677788889999999999999999999986543  34 4445555422    


Q ss_pred             -CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcH-HHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          120 -HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLV-EEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       120 -~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                       ..+.+...++|+++...-  |.......+.-.+.....+ ..+..++..+. ..|+++   +++.|-..|....+..-.
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l-~KgvPs---lF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQL-RKGVPS---LFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHH-hcCCch---HHHHHHHHHcChhHHHHH
Confidence             235778888999887653  4444433333233332333 34556666666 557654   566666666655544444


Q ss_pred             HHHHHh----CC-------------CCCcHH--HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          198 LELIRS----SK-------------FQPNAV--IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       198 ~~~~~~----~~-------------~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      .+++..    +.             -.|+..  ++.-+...|-..|++++|.++++++++..|..+..|..-++.|-+.|
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCC
Confidence            444432    11             124443  34555666889999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHhcCCCCC
Q 043124          259 RWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       259 ~~~~a~~~~~~m~~~~~~~~  278 (331)
                      ++++|.+.++..+.......
T Consensus       243 ~~~~Aa~~~~~Ar~LD~~DR  262 (517)
T PF12569_consen  243 DLKEAAEAMDEARELDLADR  262 (517)
T ss_pred             CHHHHHHHHHHHHhCChhhH
Confidence            99999999999998776554

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 [], [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.97  E-value=4.2e-07  Score=71.88  Aligned_cols=256  Identities=11%  Similarity=0.028  Sum_probs=171.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH-HHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA-LVDMYA   87 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~   87 (331)
                      |.+++..+.+..++..|++++..-.+.. +.+....+.|..+|....++..|-..++++-..-  |...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHHH
Confidence            5566666777777888888877766653 2266677777777777777777777777765542  33222221 123334


Q ss_pred             hhCCHHHHHHHHhhcCC-----------------------------------CChhhHHHHHHHHHhCCCHHHHHHHHHH
Q 043124           88 KCGSLDRSLLVFFKLRE-----------------------------------KNLFCWNSIIEGLAVHGFAHEALAMFDR  132 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~-----------------------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~  132 (331)
                      +.+.+..|+.+...|..                                   .+..+.+.......+.|+++.|.+-|+.
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            44555555554444432                                   2344555556667789999999999999


Q ss_pred             HHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC-------------Cc--------HhHHHHHHHH----
Q 043124          133 MIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT-------------PE--------VEHYGCMVDL----  187 (331)
Q Consensus       133 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~--------~~~~~~l~~~----  187 (331)
                      ..+-+---....|+.. -++.+.++.+.|.+...++. ..|+.             ||        ..+-+.++.+    
T Consensus       170 AlqvsGyqpllAYniA-LaHy~~~qyasALk~iSEIi-eRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLK  247 (459)
T KOG4340|consen  170 ALQVSGYQPLLAYNLA-LAHYSSRQYASALKHISEII-ERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLK  247 (459)
T ss_pred             HHhhcCCCchhHHHHH-HHHHhhhhHHHHHHHHHHHH-HhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhh
Confidence            9886533456678744 45677899999999988887 33432             11        1123344443    


Q ss_pred             ---HHHcCCHHHHHHHHHhCC----CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCc
Q 043124          188 ---LSKAGLLEDALELIRSSK----FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRW  260 (331)
Q Consensus       188 ---~~~~~~~~~a~~~~~~~~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  260 (331)
                         +.+.|+++.|.+-+..|+    -..|+.|.+.+.-. -..+++....+-++-++++.|-...+|..++-.|++..-+
T Consensus       248 aAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf  326 (459)
T KOG4340|consen  248 AAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYF  326 (459)
T ss_pred             hhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHH
Confidence               457789999999988886    33566776655432 2345677777778888888998888999999999999999


Q ss_pred             hHHHHHHHHH
Q 043124          261 AEVTKIRVAM  270 (331)
Q Consensus       261 ~~a~~~~~~m  270 (331)
                      +.|.+++.+-
T Consensus       327 ~lAADvLAEn  336 (459)
T KOG4340|consen  327 DLAADVLAEN  336 (459)
T ss_pred             hHHHHHHhhC
Confidence            9998888763

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

Probab=98.96  E-value=1.2e-07  Score=81.25  Aligned_cols=250  Identities=10%  Similarity=0.002  Sum_probs=187.4

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      ..-+.+.|++.+|.-+|+...+.+ +-+...|..|.......++-..|+..+.+.++.. +.+..+.-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            345678999999999999999885 4478899999999999999999999999999875 44778888899999999999


Q ss_pred             HHHHHHHhhcCCCCh-hhHHHHH---------HHHHhCCCHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           93 DRSLLVFFKLREKNL-FCWNSII---------EGLAVHGFAHEALAMFDRMIY-ENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        93 ~~a~~~~~~~~~~~~-~~~~~li---------~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      ..|.+.++.-..... ..|....         ..+.....+....++|-++.. .+..+|......|.-.|.-.|++++|
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            999998875532100 0000000         122222334556666666554 34346777778888889999999999


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMIL  239 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  239 (331)
                      ...|+......  +-|..+||.|.-.++...+.++|+.-|++ +.++|+ +.....|.-+|...|.+++|.+.|-.++.+
T Consensus       450 iDcf~~AL~v~--Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  450 VDCFEAALQVK--PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHHhcC--CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            99999998321  34588999999999999999999999987 468887 566677888899999999999999999874


Q ss_pred             CCC-----C-----cchHHHHHHHHHhcCCchHHHHH
Q 043124          240 EPN-----N-----SGYCTLLLNMYAEVSRWAEVTKI  266 (331)
Q Consensus       240 ~p~-----~-----~~~~~~l~~~~~~~g~~~~a~~~  266 (331)
                      .+.     .     ..+|..|=.++.-.++.|.+.+.
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            433     1     24666666667777776655443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.95  E-value=2.9e-07  Score=73.89  Aligned_cols=181  Identities=11%  Similarity=-0.045  Sum_probs=110.7

Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---Ch---hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH--HHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NL---FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG--VTFI  146 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~  146 (331)
                      ....+..++..+.+.|++++|...|+++...   +.   .++..+..++...|++++|...++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            3445555666666677777777766655432   11   34566666777777777777777777664311111  1333


Q ss_pred             HHHHHHhcc--------CcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHH
Q 043124          147 SVLSACTHA--------GLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALL  217 (331)
Q Consensus       147 ~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~  217 (331)
                      .+..++...        |+.+.|.+.|+.+.+.   .|+ ...+..+.....    .....           ......+.
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~~~a  173 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDY----LRNRL-----------AGKELYVA  173 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHH----HHHHH-----------HHHHHHHH
Confidence            333344333        6788888888888733   233 222222211100    11100           00112455


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          218 GGCKLHRNLEIAHIAVNELMILEPNN---SGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+...|++++|...+++++...|++   ...+..++.++.+.|++++|..+++.+...
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56889999999999999999976654   467788999999999999999999888654

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).

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

Probab=98.94  E-value=1.2e-06  Score=76.25  Aligned_cols=267  Identities=13%  Similarity=0.102  Sum_probs=197.4

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +.....|-.++++| ..+++...+.+.+.+.+. .+-...+.....-.+...|+-++|........+..+. +.+.|+.+
T Consensus         5 ~KE~~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~   81 (700)
T KOG1156|consen    5 PKENALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVL   81 (700)
T ss_pred             hHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHH
Confidence            33445567777766 667899999999888884 3445567766666777889999999998888776543 67889999


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      .-.+....++++|.+.|.....   .|...|.-+...-.+.|+++..........+.. +.....|..+..+..-.|+..
T Consensus        82 gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~  160 (700)
T KOG1156|consen   82 GLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYK  160 (700)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHH
Confidence            9889999999999999987653   466788888777888899999999999888863 445667778888888899999


Q ss_pred             HHHHHHHhhhhcCCCCCcHhHHHHHHH------HHHHcCCHHHHHHHHHhCC-CCCcHHHH-HHHHHHHhhcCCHHHHHH
Q 043124          160 EGRRRFLSMTCGYSITPEVEHYGCMVD------LLSKAGLLEDALELIRSSK-FQPNAVIW-GALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       160 ~a~~~~~~~~~~~~~~~~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~-~~p~~~~~-~~l~~~~~~~~~~~~a~~  231 (331)
                      .|..+++.......-.|+...+.....      ...+.|.+++|.+.+.... ...|...+ ..-...+.+.+++++|..
T Consensus       161 ~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~  240 (700)
T KOG1156|consen  161 MALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVK  240 (700)
T ss_pred             HHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHH
Confidence            999999999854433566555544332      3456788888888776543 11232222 223334788999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHH-hcCCchHHHHHHHHHHhc
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYA-EVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~-~~g~~~~a~~~~~~m~~~  273 (331)
                      +++.++...|++..+|..+..++. -.+..+....+|....+.
T Consensus       241 ~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~  283 (700)
T KOG1156|consen  241 VYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK  283 (700)
T ss_pred             HHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc
Confidence            999999999999999988888886 333333333666665543

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

Probab=98.92  E-value=4.8e-06  Score=73.96  Aligned_cols=61  Identities=8%  Similarity=-0.055  Sum_probs=41.9

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC
Q 043124          113 IIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS  173 (331)
Q Consensus       113 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  173 (331)
                      +.--|+..++.+.|.+...+..+.+-.-+...+..+...+...+++.+|+.+.+...+..+
T Consensus       484 lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~  544 (799)
T KOG4162|consen  484 LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFG  544 (799)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhh
Confidence            3334566677788888887777775556677777777777777777777777776665443

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

Probab=98.87  E-value=1.2e-06  Score=81.15  Aligned_cols=229  Identities=10%  Similarity=0.094  Sum_probs=138.2

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH-hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQ-VTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA   81 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   81 (331)
                      +.+...|..|+..+...+++++|.++.+...+.  .|+. ..|..+...+.+.++.+.+..+  .+...           
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-----------   92 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDS-----------   92 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhh-----------
Confidence            455667777888887888888888887766654  3333 3444444456666665555444  22222           


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLRE--KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                          .....++.-+..+...|..  .+..++..++.+|-+.|+.++|..+|+++++.+ +-|....|.+...++.. +.+
T Consensus        93 ----~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         93 ----FSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             ----cccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHH
Confidence                1111111111111111111  122366778888888888888888888888876 55677888888888888 888


Q ss_pred             HHHHHHHhhhhcCCCCCcHhHHHHHHHH---HH--HcCCHHHHHHHHHh----CCCCCcHHHHHHHHHHHhhcCCHHHHH
Q 043124          160 EGRRRFLSMTCGYSITPEVEHYGCMVDL---LS--KAGLLEDALELIRS----SKFQPNAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       160 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~---~~--~~~~~~~a~~~~~~----~~~~p~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      +|.+++.+....+   .+..-|+.+...   ++  ...+++.-..+.+.    .+..--+.++..+-..|...++++++.
T Consensus       167 KA~~m~~KAV~~~---i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i  243 (906)
T PRK14720        167 KAITYLKKAIYRF---IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVI  243 (906)
T ss_pred             HHHHHHHHHHHHH---HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHH
Confidence            8888888776321   111111111111   11  11222222222222    222333455566667788899999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          231 IAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      .+++.+++.+|.+..+...++.+|.
T Consensus       244 ~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        244 YILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHhcCCcchhhHHHHHHHHH
Confidence            9999999999999988888888886

>PLN02789 farnesyltranstransferase

Probab=98.87  E-value=3.3e-06  Score=70.25  Aligned_cols=217  Identities=12%  Similarity=0.017  Sum_probs=116.1

Q ss_pred             HHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC-CHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCH--H
Q 043124           51 CAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG-SLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFA--H  124 (331)
Q Consensus        51 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~--~  124 (331)
                      +...+..++|+...+++++.. +-+..+|+....++...| ++++++..++++.+.   +..+|+.....+.+.|+.  +
T Consensus        47 l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhH
Confidence            334455555666655555543 223344444444444444 355566655554432   233444444344444432  4


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc---CCH----HHH
Q 043124          125 EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA---GLL----EDA  197 (331)
Q Consensus       125 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a  197 (331)
                      +++..++++.+.+ +-+..+|+....++...|++++++..++++.+..  +.+...|+.....+.+.   |..    ++.
T Consensus       126 ~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        126 KELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHH
Confidence            5566666666553 3345556555555666666666666666666321  22344444444333332   112    344


Q ss_pred             HHHHH-hCCCCC-cHHHHHHHHHHHhhc----CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC-------------
Q 043124          198 LELIR-SSKFQP-NAVIWGALLGGCKLH----RNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS-------------  258 (331)
Q Consensus       198 ~~~~~-~~~~~p-~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-------------  258 (331)
                      +++.. .+...| |...|+.+...+...    ++..+|.+.+.+.....|.++.+...|+..|....             
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~  282 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTL  282 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhcc
Confidence            44443 344445 355566555555542    34456777777777777887777788888887632             


Q ss_pred             -----CchHHHHHHHHHH
Q 043124          259 -----RWAEVTKIRVAMK  271 (331)
Q Consensus       259 -----~~~~a~~~~~~m~  271 (331)
                           ..++|..+++.+.
T Consensus       283 ~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        283 AEELSDSTLAQAVCSELE  300 (320)
T ss_pred             ccccccHHHHHHHHHHHH
Confidence                 2366888887773

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.86  E-value=1.2e-06  Score=80.05  Aligned_cols=128  Identities=13%  Similarity=-0.043  Sum_probs=57.9

Q ss_pred             cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHH
Q 043124          141 NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALL  217 (331)
Q Consensus       141 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~  217 (331)
                      +...+..|.....+.|..++|..+|+...   .+.|+ ......+...+.+.+++++|+..+++. ...|+ ......+.
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~---~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a  161 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIH---QRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEA  161 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHH---hhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            34444444444444555555555554444   11332 333334444444455555554444432 22332 22333333


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          218 GGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      .++.+.|++++|..+|+++...+|++...+..+..++.+.|+.++|...|++..
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~  215 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGL  215 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334444555555555555544444444444444555555555555555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.86  E-value=2.6e-07  Score=67.70  Aligned_cols=89  Identities=10%  Similarity=-0.111  Sum_probs=52.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCc
Q 043124          183 CMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRW  260 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  260 (331)
                      .+...+...|++++|...|+.. ...| +...+..+..++...|++++|...|++++..+|+++..+..++.++...|++
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH
Confidence            3455555666666666666542 2333 3455555555566666666666666666666666666666666666666666


Q ss_pred             hHHHHHHHHHH
Q 043124          261 AEVTKIRVAMK  271 (331)
Q Consensus       261 ~~a~~~~~~m~  271 (331)
                      ++|...|++..
T Consensus       109 ~eAi~~~~~Al  119 (144)
T PRK15359        109 GLAREAFQTAI  119 (144)
T ss_pred             HHHHHHHHHHH
Confidence            66666666654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.86  E-value=5e-07  Score=72.50  Aligned_cols=59  Identities=22%  Similarity=0.179  Sum_probs=43.5

Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK  205 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  205 (331)
                      .+...+.+.|++++|...++...+.+.-.| ....+..+..++...|++++|...++.+.
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~  230 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLG  230 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345667888888888888888874432222 35677788888888899888888887654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

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

Probab=98.85  E-value=5.9e-07  Score=79.07  Aligned_cols=194  Identities=12%  Similarity=0.123  Sum_probs=124.2

Q ss_pred             CCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           73 DIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        73 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      +|-...-..+...+.+.|-...|..+|+++.     .|..+|.+|...|+..+|..+..+..+  -+||+..|..+....
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVL  467 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhc
Confidence            4444445567777888888888888888764     577788888888888888888877776  367777777776665


Q ss_pred             hccCcHHHHHHHHHhhhhc--C-----------------------CC-CCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CC
Q 043124          153 THAGLVEEGRRRFLSMTCG--Y-----------------------SI-TPEVEHYGCMVDLLSKAGLLEDALELIRS-SK  205 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~--~-----------------------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~  205 (331)
                      ....-+++|..+.+....+  .                       .+ +....+|-.+..+..+.++++.|.+.|.. ..
T Consensus       468 ~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             cChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            5555555555555443311  0                       00 11233444445555566666666666654 33


Q ss_pred             CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          206 FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       206 ~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..|| ...||.+-.+|.+.++..+|...+.++++.+-.+..+|.+.+....+.|.+++|.+.+.++.+.
T Consensus       548 L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  548 LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            4554 5566777666777777777777777776655555666666666666777777777776666544

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

Probab=98.85  E-value=4.4e-07  Score=70.29  Aligned_cols=117  Identities=13%  Similarity=0.101  Sum_probs=74.2

Q ss_pred             cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHH-HhhcCC--HHHH
Q 043124          155 AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGG-CKLHRN--LEIA  229 (331)
Q Consensus       155 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~-~~~~~~--~~~a  229 (331)
                      .++.+++...++...+..  +.+...|..+...|...|++++|...+++. ...| +...+..+..+ +...|+  .++|
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--PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            455566666666655222  445666666777777777777777777653 2344 35555555554 345555  4777


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          230 HIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .++++++++.+|++...+..+...+.+.|++++|...|+++.+.
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            77777777777777777777777777777777777777777654

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

Probab=98.84  E-value=2.2e-06  Score=76.06  Aligned_cols=127  Identities=17%  Similarity=0.097  Sum_probs=105.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhh
Q 043124          145 FISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKL  222 (331)
Q Consensus       145 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~  222 (331)
                      +......+.+.+..++|...+.+...-  .+.....|......+...|+.++|.+.|.. .-+.|+ +....++...+.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            334556677888889998888887722  233466777777788899999999998875 456775 7788899999999


Q ss_pred             cCCHHHHHH--HHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          223 HRNLEIAHI--AVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       223 ~~~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .|+...|..  ++..+++++|.+...|..|+..+.+.|+.+.|.+.|....+.
T Consensus       731 ~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            999888888  999999999999999999999999999999999999987654

>PF12854 PPR_1: PPR repeat

Probab=98.83  E-value=6.8e-09  Score=54.93  Aligned_cols=32  Identities=31%  Similarity=0.542  Sum_probs=21.5

Q ss_pred             CCCCchhHHHHHHHHHHhhCCHHHHHHHHhhc
Q 043124           71 GFDIDVYIGSALVDMYAKCGSLDRSLLVFFKL  102 (331)
Q Consensus        71 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  102 (331)
                      |+.||..+|++|+++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666666666666666666666666666665

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

Probab=98.82  E-value=5.1e-07  Score=79.45  Aligned_cols=219  Identities=15%  Similarity=0.090  Sum_probs=133.4

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCH
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFA  123 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~  123 (331)
                      |..++.+|...|+..+|..+..+-.+  -+|+...|..+++.....--+++|.++++....+   +-..+.....+.+++
T Consensus       427 w~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar---A~r~~~~~~~~~~~f  501 (777)
T KOG1128|consen  427 WDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR---AQRSLALLILSNKDF  501 (777)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH---HHHhhccccccchhH
Confidence            33333344444444444444333333  1334444444444433333344444444333222   111112222345778


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHH
Q 043124          124 HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIR  202 (331)
Q Consensus       124 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~  202 (331)
                      +++.+.|+.-.+.+ +....+|-.+..+..+.++++.|.+.|....   ...|+ ...||.+-.+|.+.++-.+|...++
T Consensus       502 s~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcv---tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~  577 (777)
T KOG1128|consen  502 SEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCV---TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLK  577 (777)
T ss_pred             HHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHh---hcCCCchhhhhhhhHHHHHHhhhHHHHHHHH
Confidence            88888888776664 4556777777777889999999999999988   23555 7899999999999999999999998


Q ss_pred             hC-CC-CCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC--CCCcchHHHHHHHHHhcCC---chHHHHHHHHHH
Q 043124          203 SS-KF-QPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE--PNNSGYCTLLLNMYAEVSR---WAEVTKIRVAMK  271 (331)
Q Consensus       203 ~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~m~  271 (331)
                      +. +. .-+...|...+....+.|.+++|.+.+.++....  -.+..+-..++....+.-.   -+++........
T Consensus       578 EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~~~~~d~s~de~~~~k~~~k  653 (777)
T KOG1128|consen  578 EALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVLEGMTDESGDEATGLKGKLK  653 (777)
T ss_pred             HHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHHhhccccccchhhhhhHHHH
Confidence            74 32 2345667777778889999999999999998722  2234444555555544332   344444444433

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

Probab=98.81  E-value=4.2e-06  Score=78.86  Aligned_cols=241  Identities=13%  Similarity=0.089  Sum_probs=179.9

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh-CCCC---chhHHHHHHHHHHhhCCHHHHHHHH
Q 043124           24 EALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQI-GFDI---DVYIGSALVDMYAKCGSLDRSLLVF   99 (331)
Q Consensus        24 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~   99 (331)
                      .|.+.-+..+..  +.+...|-.-|....+.++.+.|+++.++++.. ++.-   -..+|.++++.-..-|.-+...++|
T Consensus      1443 saeDferlvrss--PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVF 1520 (1710)
T KOG1070|consen 1443 SAEDFERLVRSS--PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVF 1520 (1710)
T ss_pred             CHHHHHHHHhcC--CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHH
Confidence            444443333332  445667888888889999999999999998875 2221   2347778888877888888899999


Q ss_pred             hhcCCC-C-hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc
Q 043124          100 FKLREK-N-LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE  177 (331)
Q Consensus       100 ~~~~~~-~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  177 (331)
                      ++..+- | -..|..|...|.+.+++++|.++|+.|.+. +.-....|...+..+.+.++-+.|..++.+..+...-.-.
T Consensus      1521 eRAcqycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eH 1599 (1710)
T KOG1070|consen 1521 ERACQYCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEH 1599 (1710)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhh
Confidence            998764 3 357889999999999999999999999876 4467788999999999999999999999998832111113


Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHh--cCCCCcchHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSSK-FQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMI--LEPNNSGYCTLLLNM  253 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~  253 (331)
                      .......+..-.+.|+.+++..+|+..- ..| -...|+..+..-.++|+.+.+..+|++++.  +.|....++.-.---
T Consensus      1600 v~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLe 1679 (1710)
T KOG1070|consen 1600 VEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLE 1679 (1710)
T ss_pred             HHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHH
Confidence            4555566677789999999999998742 334 467899999999999999999999999998  446666555444444


Q ss_pred             HH-hcCCchHHHHHH
Q 043124          254 YA-EVSRWAEVTKIR  267 (331)
Q Consensus       254 ~~-~~g~~~~a~~~~  267 (331)
                      |. ..|+-+.+..+=
T Consensus      1680 yEk~~Gde~~vE~VK 1694 (1710)
T KOG1070|consen 1680 YEKSHGDEKNVEYVK 1694 (1710)
T ss_pred             HHHhcCchhhHHHHH
Confidence            44 446655444443

>PF12854 PPR_1: PPR repeat

Probab=98.81  E-value=6.1e-09  Score=55.11  Aligned_cols=31  Identities=32%  Similarity=0.672  Sum_probs=28.5

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMK   33 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~   33 (331)
                      +||+.+||+||.+|++.|++++|.++|++|.
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            5899999999999999999999999999884

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.78  E-value=6.4e-06  Score=79.56  Aligned_cols=263  Identities=13%  Similarity=0.008  Sum_probs=175.5

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHccCCchHHHHHHHHHHHhCC---CC--chhHHHHHH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQ----VTMATVLSACAHLGALDLGREIHLYVMQIGF---DI--DVYIGSALV   83 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~   83 (331)
                      ...+...|++++|...+++....-...+.    ...+.+...+...|+++.|...+++.....-   .+  ...++..+.
T Consensus       459 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la  538 (903)
T PRK04841        459 AQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQS  538 (903)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHH
Confidence            34566789999999999998764212222    2345566677889999999999988875311   11  123555667


Q ss_pred             HHHHhhCCHHHHHHHHhhcCC-------C----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC--CCC--cHHHHHHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLRE-------K----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN--VEP--NGVTFISV  148 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p--~~~~~~~l  148 (331)
                      ..+...|++++|...+++...       +    ....+..+...+...|++++|...+.+.....  ..+  ....+..+
T Consensus       539 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  618 (903)
T PRK04841        539 EILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAML  618 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHH
Confidence            788899999999998876542       1    11234556667788899999999998876531  112  23344456


Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHH-----HHHHHHHHHcCCHHHHHHHHHhCCC-C-CcH----HHHHHHH
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHY-----GCMVDLLSKAGLLEDALELIRSSKF-Q-PNA----VIWGALL  217 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~-~-p~~----~~~~~l~  217 (331)
                      ...+...|+.+.|...+...............+     ...+..+...|+.+.|...+..... . ...    ..+..+.
T Consensus       619 a~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a  698 (903)
T PRK04841        619 AKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIA  698 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHH
Confidence            667788999999999988875311111111111     1122445568999999999876431 1 111    1134566


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcC------CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCC
Q 043124          218 GGCKLHRNLEIAHIAVNELMILE------PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGI  275 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  275 (331)
                      .++...|+.++|...++++....      +........+..++.+.|+.++|...+.+..+..-
T Consensus       699 ~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~  762 (903)
T PRK04841        699 RAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLAN  762 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            66888999999999999998732      12233456678899999999999999999887553

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

Probab=98.74  E-value=3.5e-06  Score=65.26  Aligned_cols=155  Identities=12%  Similarity=0.075  Sum_probs=111.9

Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      +-.|...|+++.+....+.+..+.        ..+...++.+++...+++..+.+ +.+...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            345777788777665554433221        01223566788888888877764 667888888889999999999999


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHH-HHcCC--HHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLL-SKAGL--LEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      ..|++..+..  +.+...+..+..++ ...|+  .++|.+++++. ...| +...+..+...+...|++++|...|++++
T Consensus        94 ~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQLR--GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999888322  33577777777764 66676  58999999874 4556 46777777778899999999999999999


Q ss_pred             hcCCCCcchHH
Q 043124          238 ILEPNNSGYCT  248 (331)
Q Consensus       238 ~~~p~~~~~~~  248 (331)
                      +..|.+..-+.
T Consensus       172 ~l~~~~~~r~~  182 (198)
T PRK10370        172 DLNSPRVNRTQ  182 (198)
T ss_pred             hhCCCCccHHH
Confidence            97766555533

>PLN02789 farnesyltranstransferase

Probab=98.73  E-value=3e-05  Score=64.61  Aligned_cols=236  Identities=13%  Similarity=0.067  Sum_probs=162.1

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC-CchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG-ALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      +++.+-..+...++.++|+.++.++.+.. +-+..+|+.-..++...| ++++++..++++.+.. +.+..+|+....++
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHH
Confidence            45566666777889999999999999864 224456666666666677 6799999999999885 34666777666666


Q ss_pred             HhhCCH--HHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc---Cc-
Q 043124           87 AKCGSL--DRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA---GL-  157 (331)
Q Consensus        87 ~~~g~~--~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---~~-  157 (331)
                      .+.|+.  +++..+++++.+   .|..+|+....++...|+++++++.++++++.+ +-+...|+.....+.+.   |. 
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccc
Confidence            666763  677888877764   466789999999999999999999999999986 34566666555444443   22 


Q ss_pred             ---HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc----CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcC----
Q 043124          158 ---VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA----GLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHR----  224 (331)
Q Consensus       158 ---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~----  224 (331)
                         .+.+..+...+....  +-+...|+.+...+...    +...+|.+++.+. ...| +......|+..|....    
T Consensus       196 ~~~~e~el~y~~~aI~~~--P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~  273 (320)
T PLN02789        196 EAMRDSELKYTIDAILAN--PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTA  273 (320)
T ss_pred             cccHHHHHHHHHHHHHhC--CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccch
Confidence               246677776666232  44577888777777763    3456687777663 3344 4666777777776532    


Q ss_pred             --------------CHHHHHHHHHHHHhcCCCCcchHH
Q 043124          225 --------------NLEIAHIAVNELMILEPNNSGYCT  248 (331)
Q Consensus       225 --------------~~~~a~~~~~~~~~~~p~~~~~~~  248 (331)
                                    ..++|.++++.+.+.+|-...+|.
T Consensus       274 ~~~~~~~~~~~~~~~~~~a~~~~~~l~~~d~ir~~yw~  311 (320)
T PLN02789        274 EFRDTVDTLAEELSDSTLAQAVCSELEVADPMRRNYWA  311 (320)
T ss_pred             hhhhhhhccccccccHHHHHHHHHHHHhhCcHHHHHHH
Confidence                          235667777666545555444443

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

Probab=98.73  E-value=1.3e-05  Score=62.56  Aligned_cols=151  Identities=18%  Similarity=0.064  Sum_probs=73.0

Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAG  156 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  156 (331)
                      ..+-..+.-.|+-+....+......   .|....+..+....+.|++.+|...+++..... ++|..+++.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            3344444445555554444444321   123334445555555555555555555554442 445555555555555555


Q ss_pred             cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCC--CcHHHHHHHHHHHhhcCCHHHHHHHH
Q 043124          157 LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQ--PNAVIWGALLGGCKLHRNLEIAHIAV  233 (331)
Q Consensus       157 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~  233 (331)
                      +.+.|..-|.+..+-.  .-+...++.+...+.-.|+.+.|..++......  -|...-..+.......|+++.|+++.
T Consensus       149 r~~~Ar~ay~qAl~L~--~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         149 RFDEARRAYRQALELA--PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             ChhHHHHHHHHHHHhc--cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            5555555555555221  112334455555555555555555555542211  13444444544555555555555543

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

Probab=98.71  E-value=1.2e-05  Score=62.71  Aligned_cols=250  Identities=12%  Similarity=0.035  Sum_probs=164.8

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      |+-..||  ++-+.-.|++..++..-.......  -+...-..+.++|...|.+.....   ++.... .|.......+.
T Consensus         8 ~~d~LF~--iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a   79 (299)
T KOG3081|consen    8 PEDELFN--IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLA   79 (299)
T ss_pred             cchhHHH--HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccc---cccccc-CChHHHHHHHH
Confidence            4444555  677777888888877655554432  344445556777877787754433   333332 33444444444


Q ss_pred             HHHHhhCCHHHHH-HHHhhcCCC----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcH
Q 043124           84 DMYAKCGSLDRSL-LVFFKLREK----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLV  158 (331)
Q Consensus        84 ~~~~~~g~~~~a~-~~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  158 (331)
                      .....-++.+.-. ++.+.+..+    +......-...|+..|++++|++......      +......=+..+.+..+.
T Consensus        80 ~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~  153 (299)
T KOG3081|consen   80 EYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRF  153 (299)
T ss_pred             HHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHH
Confidence            4443344433322 333444333    22333444567889999999999887721      222233333456778899


Q ss_pred             HHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH----cCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHH
Q 043124          159 EEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK----AGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       159 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      +.|.+.++.|. +-   -+..+.+.|..++.+    .+.+.+|.-+|+++.  ..|+..+.+....++...|++++|+.+
T Consensus       154 d~A~~~lk~mq-~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~l  229 (299)
T KOG3081|consen  154 DLAEKELKKMQ-QI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESL  229 (299)
T ss_pred             HHHHHHHHHHH-cc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHH
Confidence            99999999998 21   234566666666654    567889999999874  678999999999999999999999999


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhcCCchHH-HHHHHHHH
Q 043124          233 VNELMILEPNNSGYCTLLLNMYAEVSRWAEV-TKIRVAMK  271 (331)
Q Consensus       233 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  271 (331)
                      ++.++..+++++.+...++..-...|.-.++ .+.+.+++
T Consensus       230 L~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  230 LEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQLK  269 (299)
T ss_pred             HHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            9999999999999988888888888877554 34555554

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

Probab=98.70  E-value=4.5e-05  Score=65.33  Aligned_cols=160  Identities=10%  Similarity=0.004  Sum_probs=100.6

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHH----
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMV----  185 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~----  185 (331)
                      .-.++++..+..++..|.+.+....+..  -+..-++....++...|.+......-....+. |-. ...-|+.+.    
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~-gre-~rad~klIak~~~  302 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEV-GRE-LRADYKLIAKALA  302 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHH-hHH-HHHHHHHHHHHHH
Confidence            3445555666666777777777766653  34444455556666666665555444443321 110 112222222    


Q ss_pred             ---HHHHHcCCHHHHHHHHHhCC---CCCcHHH-------------------------HHHHHHHHhhcCCHHHHHHHHH
Q 043124          186 ---DLLSKAGLLEDALELIRSSK---FQPNAVI-------------------------WGALLGGCKLHRNLEIAHIAVN  234 (331)
Q Consensus       186 ---~~~~~~~~~~~a~~~~~~~~---~~p~~~~-------------------------~~~l~~~~~~~~~~~~a~~~~~  234 (331)
                         .+|.+.++++.|+..+.+.-   ..|+..+                         ...-...+.+.|++..|.+.+.
T Consensus       303 r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yt  382 (539)
T KOG0548|consen  303 RLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYT  382 (539)
T ss_pred             HhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence               34555667777777765421   1122211                         1111334778999999999999


Q ss_pred             HHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          235 ELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       235 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +++..+|++...|....-+|.+.|.+..|+.-.+.-.+.
T Consensus       383 eAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL  421 (539)
T KOG0548|consen  383 EAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIEL  421 (539)
T ss_pred             HHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999877776654

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

Probab=98.70  E-value=5.4e-06  Score=64.53  Aligned_cols=160  Identities=16%  Similarity=0.114  Sum_probs=129.6

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHH
Q 043124          106 NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMV  185 (331)
Q Consensus       106 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  185 (331)
                      |... ..+-..+...|+-+....+....... .+-+.......+....+.|++..|...+++...  .-++|...|+.+.
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-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHH
Confidence            4445 66777788888888888888776543 244555566688888999999999999999883  3377899999999


Q ss_pred             HHHHHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHH
Q 043124          186 DLLSKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEV  263 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  263 (331)
                      -+|-+.|+++.|..-|.+ ..+.| +....+.+...+.-.|+.+.|..++.......+.+..+-..|..+....|++++|
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHH
Confidence            999999999999888876 34444 4667788888889999999999999999988888888889999999999999999


Q ss_pred             HHHHHH
Q 043124          264 TKIRVA  269 (331)
Q Consensus       264 ~~~~~~  269 (331)
                      .++...
T Consensus       222 ~~i~~~  227 (257)
T COG5010         222 EDIAVQ  227 (257)
T ss_pred             Hhhccc
Confidence            887655

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.69  E-value=8.7e-07  Score=64.95  Aligned_cols=122  Identities=7%  Similarity=-0.021  Sum_probs=91.2

Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 043124          128 AMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KF  206 (331)
Q Consensus       128 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~  206 (331)
                      .+|++..+.  .|+.  +......+...|++++|...|+......  +.+...|..+..++.+.|++++|...|++. ..
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ--PWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            455555553  3443  4456677788889999999888887321  445778888888888899999999888863 34


Q ss_pred             CC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          207 QP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       207 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      .| +...+..+..++...|+.++|...++++++..|+++..+.....+..
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            45 57777888888888999999999999999999988888766655543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.66  E-value=0.0001  Score=63.32  Aligned_cols=119  Identities=9%  Similarity=0.036  Sum_probs=93.5

Q ss_pred             HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC---CCC-cHHHHHHHHHHHhhcCCHHHHHHHH
Q 043124          158 VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK---FQP-NAVIWGALLGGCKLHRNLEIAHIAV  233 (331)
Q Consensus       158 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  233 (331)
                      .+....+++++.....+.|+ .+|..++..-.+..-++.|..+|.+.+   ..+ ++..+.+++.-++ .+|.+.|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            44555566666644555555 467778888888899999999998764   334 6777777777665 67899999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          234 NELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       234 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +-.++..++++.+-...+.-+...|+-..+..+|++....++.++
T Consensus       425 eLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~  469 (656)
T KOG1914|consen  425 ELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSAD  469 (656)
T ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChh
Confidence            999999999888878888999999999999999999998866655

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.65  E-value=1.6e-05  Score=61.64  Aligned_cols=191  Identities=15%  Similarity=0.111  Sum_probs=136.6

Q ss_pred             ccCCchHHHHHHHHHHHh---C-CCCchh-HHHHHHHHHHhhCCHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHH
Q 043124           53 HLGALDLGREIHLYVMQI---G-FDIDVY-IGSALVDMYAKCGSLDRSLLVFFKLREKNL---FCWNSIIEGLAVHGFAH  124 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~  124 (331)
                      ...+.++..+++.+++..   | ..++.. +|..++-+....|+.+-|..+++.+...=+   .+--.-..-+-..|+++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchh
Confidence            345677777777777542   3 344443 344556666778888888888887764312   12222222345678999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          125 EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       125 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                      +|+++|+.+.+.+ |.|..++---+...-..|..-+|++-++...+.  +..|...|.-+...|...|++++|.-+++++
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-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999886 566777776666777788888999999988844  4778999999999999999999999999985


Q ss_pred             C-CCCc-HHHHHHHHHHHh---hcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          205 K-FQPN-AVIWGALLGGCK---LHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       205 ~-~~p~-~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      - .+|. ...+..+...+.   ...+++.+.+++.+++++.|.+...
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ra  227 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRA  227 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHH
Confidence            3 5664 555555665533   3446788999999999998854433

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

Probab=98.64  E-value=4.5e-05  Score=66.76  Aligned_cols=271  Identities=13%  Similarity=0.128  Sum_probs=156.0

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      ..+.++|+.+.-.+....++++|+.+|......+ +.|...+.-+.-.-++.|+++.......+..+.. +.....|..+
T Consensus        72 ~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~  149 (700)
T KOG1156|consen   72 LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGF  149 (700)
T ss_pred             cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHH
Confidence            3567889999999999999999999999988764 3344444433333334444444444443333331 1122333333


Q ss_pred             HHHHH------------------------------------------hhCCHHHHHHHHhhcCCC---ChhhHHHHHHHH
Q 043124           83 VDMYA------------------------------------------KCGSLDRSLLVFFKLREK---NLFCWNSIIEGL  117 (331)
Q Consensus        83 ~~~~~------------------------------------------~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~  117 (331)
                      ..++.                                          +.|..++|.+.+......   ....-..-...+
T Consensus       150 Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~  229 (700)
T KOG1156|consen  150 AVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLL  229 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHH
Confidence            33333                                          444455555444433321   112233445567


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH-HHHHhccCcHHHHH-HHHHhhhhcCC--CCCc--------HhHHHHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISV-LSACTHAGLVEEGR-RRFLSMTCGYS--ITPE--------VEHYGCMV  185 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~a~-~~~~~~~~~~~--~~~~--------~~~~~~l~  185 (331)
                      .+.+++++|..++..++..+  ||...|... ..++.+-.+.-++. .+|....+...  -.|-        -.-+...+
T Consensus       230 ~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~v  307 (700)
T KOG1156|consen  230 MKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIV  307 (700)
T ss_pred             HHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHH
Confidence            77888888888888888763  565555544 44443333333343 66666553221  0110        00111111


Q ss_pred             HHHH----HcC-------------CHHHHHHHHHh--------CC-------------CCCcHHH--HHHHHHHHhhcCC
Q 043124          186 DLLS----KAG-------------LLEDALELIRS--------SK-------------FQPNAVI--WGALLGGCKLHRN  225 (331)
Q Consensus       186 ~~~~----~~~-------------~~~~a~~~~~~--------~~-------------~~p~~~~--~~~l~~~~~~~~~  225 (331)
                      +-|.    +.|             +..++- ++++        +.             -.|....  +.-++..+-..|+
T Consensus       308 dkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~-~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~  386 (700)
T KOG1156|consen  308 DKYLRPLLSKGVPSVFKDLRSLYKDPEKVA-FLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGD  386 (700)
T ss_pred             HHHHHHHhhcCCCchhhhhHHHHhchhHhH-HHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHccc
Confidence            1111    111             111111 2221        11             1344443  4455566889999


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          226 LEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       226 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      ++.|..+++.++...|.-+..|..=.+++...|+.++|...+++..+.+....
T Consensus       387 ~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR  439 (700)
T KOG1156|consen  387 YEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADR  439 (700)
T ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhH
Confidence            99999999999999999888888889999999999999999999987665433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.63  E-value=1e-05  Score=74.12  Aligned_cols=144  Identities=9%  Similarity=-0.085  Sum_probs=118.5

Q ss_pred             CCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHH
Q 043124           37 ISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSI  113 (331)
Q Consensus        37 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l  113 (331)
                      ...+...+..|..+..+.|.+++|..+++.+.+.. +.+......+..++.+.+++++|+..+++....   +....+.+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            45567888899999999999999999999999874 446778888999999999999999999988764   44678888


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHH
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCM  184 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  184 (331)
                      ..++.+.|++++|.++|+++...+ +-+..++..+..++...|+.++|...|+...+..  .+....|+.+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~--~~~~~~~~~~  228 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI--GDGARKLTRR  228 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh--CcchHHHHHH
Confidence            899999999999999999999843 4457888889999999999999999999988433  3444454443

>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=98.62  E-value=2.6e-06  Score=72.29  Aligned_cols=127  Identities=14%  Similarity=0.102  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc
Q 043124           78 IGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGL  157 (331)
Q Consensus        78 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  157 (331)
                      ....|+..+...++++.|.++|+++.+.++.....++..+...++..+|.+++++..... +-+......-...|.+.++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            344566677778899999999999988888888888888888888889999999888663 4566666667777889999


Q ss_pred             HHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 043124          158 VEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRSSKFQP  208 (331)
Q Consensus       158 ~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p  208 (331)
                      .+.|..+.+++.+   ..|+ -.+|..|..+|...|+++.|+..++.+++.|
T Consensus       250 ~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  250 YELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            9999999999882   2454 6689999999999999999999888876443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.62  E-value=0.00013  Score=64.02  Aligned_cols=261  Identities=14%  Similarity=0.196  Sum_probs=162.3

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHC-CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNS-GISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      .|-.-+....++|+.......|+..+.. -+......|...+......+-++.+..+++..++..  |  ..-...+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~--P--~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA--P--EAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC--H--HHHHHHHHHH
Confidence            3445555566677777777777766554 222233456666666666677777777777766642  2  2245566677


Q ss_pred             HhhCCHHHHHHHHhhcCCC--------------------------------C----------------hhhHHHHHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREK--------------------------------N----------------LFCWNSIIEGLA  118 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~--------------------------------~----------------~~~~~~li~~~~  118 (331)
                      ++.+++++|-+.+..+...                                |                ...|+.|...|.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHH
Confidence            7777777777666555410                                0                125778888888


Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHh---------------------------------------------
Q 043124          119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACT---------------------------------------------  153 (331)
Q Consensus       119 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~---------------------------------------------  153 (331)
                      +.|.+++|..+|++....  ..+..-|..+..+|+                                             
T Consensus       260 r~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~l  337 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLL  337 (835)
T ss_pred             HhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHH
Confidence            888888888888876543  112222222222221                                             


Q ss_pred             ---------------------ccCcHHHHHHHHHhhhhcCCCCCc------HhHHHHHHHHHHHcCCHHHHHHHHHhCCC
Q 043124          154 ---------------------HAGLVEEGRRRFLSMTCGYSITPE------VEHYGCMVDLLSKAGLLEDALELIRSSKF  206 (331)
Q Consensus       154 ---------------------~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  206 (331)
                                           ..|+..+-...|.+..+  .+.|.      ...|..+.+.|-..|+++.|..+|++...
T Consensus       338 NsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~--~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~  415 (835)
T KOG2047|consen  338 NSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVK--TVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATK  415 (835)
T ss_pred             HHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHH--ccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhc
Confidence                                 11445555555655552  22332      34677888889999999999999987542


Q ss_pred             CC--c----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC--CC----------------CcchHHHHHHHHHhcCCchH
Q 043124          207 QP--N----AVIWGALLGGCKLHRNLEIAHIAVNELMILE--PN----------------NSGYCTLLLNMYAEVSRWAE  262 (331)
Q Consensus       207 ~p--~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~----------------~~~~~~~l~~~~~~~g~~~~  262 (331)
                      .|  .    ..+|..-...-.++.+++.|.++++++...-  |.                +...|..+++.-...|-++.
T Consensus       416 V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfes  495 (835)
T KOG2047|consen  416 VPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFES  495 (835)
T ss_pred             CCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHH
Confidence            22  1    2345555555667888999999988886521  11                23445666666677788888


Q ss_pred             HHHHHHHHHhcCCC
Q 043124          263 VTKIRVAMKELGIE  276 (331)
Q Consensus       263 a~~~~~~m~~~~~~  276 (331)
                      ...+++++.+..+-
T Consensus       496 tk~vYdriidLria  509 (835)
T KOG2047|consen  496 TKAVYDRIIDLRIA  509 (835)
T ss_pred             HHHHHHHHHHHhcC
Confidence            88888888876653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.59  E-value=9.8e-06  Score=65.86  Aligned_cols=212  Identities=11%  Similarity=-0.007  Sum_probs=89.1

Q ss_pred             CCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCC-------HHHHH
Q 043124           55 GALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGF-------AHEAL  127 (331)
Q Consensus        55 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~-------~~~a~  127 (331)
                      ++-+.|++++--+.+.  -|  .....|+-.|.+.+++.+|..+.+++...++.-|-.-.-.++..|+       ..-|.
T Consensus       268 rngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAq  343 (557)
T KOG3785|consen  268 RNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQ  343 (557)
T ss_pred             eCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHH
Confidence            3445555555444432  12  2223344455566666666666555544444333333333333332       22333


Q ss_pred             HHHHHHHHcCCCCc-HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-
Q 043124          128 AMFDRMIYENVEPN-GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-  205 (331)
Q Consensus       128 ~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-  205 (331)
                      +.|+-.-+.+..-| ..--.++...+.-..++++.+.+++.+. .+=..-|...+| +.++++..|++.+|.++|-.+. 
T Consensus       344 qffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~-sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~  421 (557)
T KOG3785|consen  344 QFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIE-SYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISG  421 (557)
T ss_pred             HHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHH-HHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcC
Confidence            33333323222211 1112233333444445555555555555 222222333333 4555555555555555554432 


Q ss_pred             --CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc-chHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          206 --FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS-GYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       206 --~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                        ++.+..-...|.++|.+.+.++.|..++-++  ..|.+. .....+..-|.+.+.+--|.+.|+.+...+
T Consensus       422 ~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~--~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  422 PEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT--NTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             hhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc--CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence              1222222233344455555555555444222  112211 112223344555555555555555554433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.58  E-value=1.2e-07  Score=50.54  Aligned_cols=34  Identities=24%  Similarity=0.549  Sum_probs=29.4

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISP   39 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   39 (331)
                      +.+||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3688999999999999999999999998888877

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.57  E-value=1.1e-07  Score=50.96  Aligned_cols=35  Identities=34%  Similarity=0.630  Sum_probs=31.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQ   41 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   41 (331)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999998873

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

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

Probab=98.57  E-value=2.1e-05  Score=73.11  Aligned_cols=203  Identities=10%  Similarity=0.049  Sum_probs=149.3

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHh
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAV  119 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~  119 (331)
                      +...+..|+..+...+++++|.++.+...+.. +-....|-.+...+.+.++.+++.-+             .++.....
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~~   95 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFSQ   95 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhccc
Confidence            45678899999999999999999999777763 33445555555577777776665443             34555556


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHH
Q 043124          120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALE  199 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  199 (331)
                      ..++.-+..+...|...  .-+...+-.+..+|-+.|+.++|..+|+++. +.. +-++...|.+...|... ++++|.+
T Consensus        96 ~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L-~~D-~~n~~aLNn~AY~~ae~-dL~KA~~  170 (906)
T PRK14720         96 NLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLV-KAD-RDNPEIVKKLATSYEEE-DKEKAIT  170 (906)
T ss_pred             ccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHH-hcC-cccHHHHHHHHHHHHHh-hHHHHHH
Confidence            66776666666677664  3455677789999999999999999999999 444 55688999999999999 9999999


Q ss_pred             HHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchH--------------------HHHHHHHHhcCC
Q 043124          200 LIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYC--------------------TLLLNMYAEVSR  259 (331)
Q Consensus       200 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~--------------------~~l~~~~~~~g~  259 (331)
                      ++.+.-            ..+...+++..+.++|.++....|++...+                    ..+-..|...++
T Consensus       171 m~~KAV------------~~~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~  238 (906)
T PRK14720        171 YLKKAI------------YRFIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALED  238 (906)
T ss_pred             HHHHHH------------HHHHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhh
Confidence            887642            125556677777777777777777655443                    333456667778


Q ss_pred             chHHHHHHHHHHhc
Q 043124          260 WAEVTKIRVAMKEL  273 (331)
Q Consensus       260 ~~~a~~~~~~m~~~  273 (331)
                      |+++..+++.+.+.
T Consensus       239 ~~~~i~iLK~iL~~  252 (906)
T PRK14720        239 WDEVIYILKKILEH  252 (906)
T ss_pred             hhHHHHHHHHHHhc
Confidence            88999999888754

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.54  E-value=2.8e-05  Score=69.95  Aligned_cols=211  Identities=13%  Similarity=0.080  Sum_probs=138.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCC---------CCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSG---------ISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID   75 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   75 (331)
                      +-..|..|.++|.+.++.+-|.-++-.|....         -.|+ .+=..........|.+++|+.++.+-++.     
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~-----  829 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY-----  829 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH-----
Confidence            34568888888888888877777766664321         1222 22222233345667888888888776653     


Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHhCCCHHHHHHHHHHH----------HHcC-------
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLREK-NLFCWNSIIEGLAVHGFAHEALAMFDRM----------IYEN-------  137 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m----------~~~~-------  137 (331)
                          ..|=..|...|.|++|.++-+.--+- =-.||......+-..++.+.|++.|++.          +...       
T Consensus       830 ----DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Y  905 (1416)
T KOG3617|consen  830 ----DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQY  905 (1416)
T ss_pred             ----HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHH
Confidence                23344566778888888776543322 1246777777777788888888888763          2111       


Q ss_pred             --CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHH
Q 043124          138 --VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGA  215 (331)
Q Consensus       138 --~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~  215 (331)
                        -..|...|.-....+-..|+.+.|+.+|...+ +         |-++++..|-.|+.++|-.+-++.+   |......
T Consensus       906 v~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~-D---------~fs~VrI~C~qGk~~kAa~iA~esg---d~AAcYh  972 (1416)
T KOG3617|consen  906 VRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK-D---------YFSMVRIKCIQGKTDKAARIAEESG---DKAACYH  972 (1416)
T ss_pred             HHhccchHHHHHHHHHHhcccchHHHHHHHHHhh-h---------hhhheeeEeeccCchHHHHHHHhcc---cHHHHHH
Confidence              11244445555555667788888888888777 2         4556777777888888888887776   5566777


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHh
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      |.+.|-..|++.+|..+|-++..
T Consensus       973 laR~YEn~g~v~~Av~FfTrAqa  995 (1416)
T KOG3617|consen  973 LARMYENDGDVVKAVKFFTRAQA  995 (1416)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHH
Confidence            88888888888888888877754

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.53  E-value=2.3e-05  Score=67.85  Aligned_cols=120  Identities=13%  Similarity=0.006  Sum_probs=50.2

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHH
Q 043124           14 TCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLD   93 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   93 (331)
                      ..+...+++++|.+.-.++...+ +-|...+..-+-+..+.+.+++|+.+.+.-..  ...+...+---.-+..+.+..|
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNKLD   96 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHcccHH
Confidence            33444455555555555555443 22333344444444555555555433221100  0000000001122333445555


Q ss_pred             HHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124           94 RSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus        94 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      +|...++.....+..+...-...+.+.|++++|+.+|+.+.+.
T Consensus        97 ealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn  139 (652)
T KOG2376|consen   97 EALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKN  139 (652)
T ss_pred             HHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            5555555333333334444444455555555555555555444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.53  E-value=0.00022  Score=69.09  Aligned_cols=263  Identities=12%  Similarity=0.027  Sum_probs=168.9

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCC------CCC--HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc----hhH
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGI------SPD--QVTMATVLSACAHLGALDLGREIHLYVMQIGFDID----VYI   78 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~------~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~   78 (331)
                      .....+...|+++++...+......--      .+.  ......+...+...|+++.|...+++..+.-...+    ...
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            344556678999999999887754311      111  12222334455678999999999998876421112    124


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHhhcCC-------C--ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCC--C-cH
Q 043124           79 GSALVDMYAKCGSLDRSLLVFFKLRE-------K--NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NVE--P-NG  142 (331)
Q Consensus        79 ~~~l~~~~~~~g~~~~a~~~~~~~~~-------~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~--p-~~  142 (331)
                      .+.+...+...|++++|...+++...       +  -..++..+...+...|++++|...+++....    +..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            45666777889999999998877652       1  1235566777888999999999998887653    211  1 22


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHhhhhc---CCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC----CCCcHHHH--
Q 043124          143 VTFISVLSACTHAGLVEEGRRRFLSMTCG---YSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK----FQPNAVIW--  213 (331)
Q Consensus       143 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~p~~~~~--  213 (331)
                      ..+..+...+...|++++|...+.+....   .+.......+..+...+...|++++|.+.+.+..    .......+  
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            33445556677789999999998887531   1111123445556667888999999988876531    11111111  


Q ss_pred             ---HHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch----HHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          214 ---GALLGGCKLHRNLEIAHIAVNELMILEPNNSGY----CTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       214 ---~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~----~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                         ...+..+...|+.+.|..++.......+.....    +..+..++...|++++|...+++....
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               111233556889999999987765532222211    346778899999999999999987654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.51  E-value=9.4e-05  Score=60.35  Aligned_cols=247  Identities=11%  Similarity=0.075  Sum_probs=154.4

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHhhHHHHH-HHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--hCCHHH
Q 043124           18 QNKQFREALDAFNEMKNSGISPDQVTMATVL-SACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK--CGSLDR   94 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~   94 (331)
                      -.-.+.+|+++|.+....  .|.-...+.-+ -+|.+..-++-+.++++--++. ++.+....|....-..+  .|+..+
T Consensus       163 mR~HYQeAIdvYkrvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae  239 (557)
T KOG3785|consen  163 MRMHYQEAIDVYKRVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAE  239 (557)
T ss_pred             HHHHHHHHHHHHHHHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhH
Confidence            344688999999998876  34555555433 3456777778888888776665 34444444443333222  233222


Q ss_pred             HH--HHHhhcC-------------------------------CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc
Q 043124           95 SL--LVFFKLR-------------------------------EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPN  141 (331)
Q Consensus        95 a~--~~~~~~~-------------------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  141 (331)
                      ++  ++-+...                               +.=+.+.-.|+-.|.+.+++.+|..+..++.    |.+
T Consensus       240 ~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~----Ptt  315 (557)
T KOG3785|consen  240 DEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLD----PTT  315 (557)
T ss_pred             HHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcC----CCC
Confidence            21  1111111                               1113456667778899999999999887752    223


Q ss_pred             HHHHH--HHHH-----HHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHH
Q 043124          142 GVTFI--SVLS-----ACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAV  211 (331)
Q Consensus       142 ~~~~~--~ll~-----~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~  211 (331)
                      +.-|.  .+..     -........-|.+.|+.+- ..+..-| +.--.++...+.-..++++++-.++.+.  +..|..
T Consensus       316 P~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG-~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~  394 (557)
T KOG3785|consen  316 PYEYILKGVVFAALGQETGSREHLKIAQQFFQLVG-ESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDD  394 (557)
T ss_pred             hHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhc-ccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcch
Confidence            33332  2221     1222334566888887766 4444333 3344566777778889999999888765  444444


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCC-CCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEP-NNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .-..+..+.+..|++.+|+++|-++..-+- +...+...|.++|.+.++.+.|++++-++..
T Consensus       395 Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t  456 (557)
T KOG3785|consen  395 FNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT  456 (557)
T ss_pred             hhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC
Confidence            445578889999999999999988766443 3344446778999999999999988876643

>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=98.51  E-value=6.2e-06  Score=70.08  Aligned_cols=124  Identities=11%  Similarity=0.059  Sum_probs=102.6

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHH
Q 043124          143 VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGC  220 (331)
Q Consensus       143 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~  220 (331)
                      .....++..+...++++.|..+|+++.+.   .|+  ....+++.+...++-.+|.+++.+. ...| +..........|
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 YLVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            33445677777889999999999999933   355  4455788888899999999998863 3344 555566666668


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ...++++.|..+.+++....|++...|..|..+|...|+++.|+..++.+.
T Consensus       245 l~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            899999999999999999999999999999999999999999999998875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.51  E-value=0.00014  Score=59.06  Aligned_cols=229  Identities=10%  Similarity=0.067  Sum_probs=165.6

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCH--------------hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHH
Q 043124           14 TCYSQNKQFREALDAFNEMKNSGISPDQ--------------VTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIG   79 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~--------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   79 (331)
                      ..+.+.|.+++|..=|+...+.......              +.....+..+...|+...|+.....+++.. +-+...+
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~  192 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHH
Confidence            3467889999999999999887421111              112233445667899999999999999874 5588889


Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhc---CCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH----HHHH----
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKL---REKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVT----FISV----  148 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~----~~~l----  148 (331)
                      ..-..+|...|+...|+.=++..   ...+...+..+-..+...|+.+.++...++.++.  .||...    |-.+    
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~  270 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVV  270 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHH
Confidence            99999999999999998665544   4456777777888888999999999999988875  455432    1111    


Q ss_pred             -----HHHHhccCcHHHHHHHHHhhhhcCCCCC---cHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHH
Q 043124          149 -----LSACTHAGLVEEGRRRFLSMTCGYSITP---EVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLG  218 (331)
Q Consensus       149 -----l~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~  218 (331)
                           +......++|.++..-.+.+. +.....   ....+..+-.++...+++.+|++...+ +.+.|+ +.++--=..
T Consensus       271 K~les~e~~ie~~~~t~cle~ge~vl-k~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAe  349 (504)
T KOG0624|consen  271 KSLESAEQAIEEKHWTECLEAGEKVL-KNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAE  349 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHH-hcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHH
Confidence                 122345677888888888777 332221   123444555667788999999988876 456665 777777777


Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      +|.....++.|+.-|+.+.+.+|++..+
T Consensus       350 A~l~dE~YD~AI~dye~A~e~n~sn~~~  377 (504)
T KOG0624|consen  350 AYLGDEMYDDAIHDYEKALELNESNTRA  377 (504)
T ss_pred             HHhhhHHHHHHHHHHHHHHhcCcccHHH
Confidence            8888889999999999999988876544

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

Probab=98.50  E-value=6.9e-05  Score=64.23  Aligned_cols=236  Identities=14%  Similarity=0.095  Sum_probs=163.4

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH-------
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA-------   81 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------   81 (331)
                      +..+.++.-+..+++.|++.+.......  -+..-++....++...|.+.......+...+.|.. ...-++.       
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4567778888889999999999888764  24444566666788888888888777777766532 2233333       


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH-HHHHHHHHHHhccCcHHH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG-VTFISVLSACTHAGLVEE  160 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~  160 (331)
                      +..+|.+.++++.|...|++...+...     -....+....+++....+...-.+  |.. .-.-.-...+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~~--pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAYIN--PEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHhhC--hhHHHHHHHHHHHHHhccCHHH
Confidence            334566677888888888875432111     112233344556666555554433  332 122223667788999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      |+..|.++++..  +-|...|....-+|.+.|.+..|+.-.+.. ...|+ ...|..=..++....+++.|.+.|++.++
T Consensus       377 Av~~YteAIkr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  377 AVKHYTEAIKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999443  567899999999999999999998877753 34554 55666666677788899999999999999


Q ss_pred             cCCCCcchHHHHHHHHHh
Q 043124          239 LEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       239 ~~p~~~~~~~~l~~~~~~  256 (331)
                      .+|++..+-..+.++...
T Consensus       455 ~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  455 LDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             cCchhHHHHHHHHHHHHH
Confidence            999987775555555543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.48  E-value=1.9e-05  Score=58.06  Aligned_cols=124  Identities=12%  Similarity=0.111  Sum_probs=76.0

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc--hhHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPD---QVTMATVLSACAHLGALDLGREIHLYVMQIGFDID--VYIGSAL   82 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l   82 (331)
                      .|..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+.+......|+  ......|
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            455566655 3677777777777777653 222   12222344566677777777777777777652222  1233445


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCC--ChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREK--NLFCWNSIIEGLAVHGFAHEALAMFDRM  133 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m  133 (331)
                      ..++...|++++|+..++....+  ....+.....++.+.|++++|...|++.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            66677777777777777665433  2345566677777777777777777653

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.46  E-value=4.5e-06  Score=60.64  Aligned_cols=96  Identities=10%  Similarity=-0.001  Sum_probs=42.3

Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhc
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLH  223 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~  223 (331)
                      ..+...+...|++++|...|+.+....  +.+...+..+...+...|++++|...+++. ...| +...+..+..++...
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAYD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Confidence            334444444555555555555444111  223344444444444445555554444432 1222 233344444444444


Q ss_pred             CCHHHHHHHHHHHHhcCCCC
Q 043124          224 RNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~p~~  243 (331)
                      |++++|...++++++..|++
T Consensus        99 g~~~~A~~~~~~al~~~p~~  118 (135)
T TIGR02552        99 GEPESALKALDLAIEICGEN  118 (135)
T ss_pred             CCHHHHHHHHHHHHHhcccc
Confidence            55555555555554444443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.46  E-value=1.1e-05  Score=58.65  Aligned_cols=95  Identities=19%  Similarity=0.217  Sum_probs=58.5

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 043124          179 EHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       179 ~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  256 (331)
                      .....+...+...|++++|.+.++.. ...| +...+..+..++...|++++|...++.+++..|++...+..+..+|..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            34444555566666666666666653 2233 445555555566666666666666666666666666666666666666


Q ss_pred             cCCchHHHHHHHHHHhc
Q 043124          257 VSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       257 ~g~~~~a~~~~~~m~~~  273 (331)
                      .|++++|...+++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        98 LGEPESALKALDLAIEI  114 (135)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666666554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=98.41  E-value=0.00011  Score=57.61  Aligned_cols=217  Identities=12%  Similarity=0.040  Sum_probs=143.7

Q ss_pred             HHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHH-
Q 043124           49 SACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEAL-  127 (331)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~-  127 (331)
                      +-+.-.|++..++..-.......  -+...-.-+-++|...|.+.....-...-..+.......+...+..-++-+.-. 
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~eI~~~~~~~lqAvr~~a~~~~~e~~~~~~~~   93 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVISEIKEGKATPLQAVRLLAEYLELESNKKSILA   93 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccccccccccccccCChHHHHHHHHHHhhCcchhHHHHH
Confidence            34445688877766654443331  234444446677887887665544333333334444444444444444444433 


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Q 043124          128 AMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQ  207 (331)
Q Consensus       128 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  207 (331)
                      ++.+.+.......+......-...|++.|++++|++......       +......=+..+.+..+++-|...+++|.--
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~-------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i  166 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE-------NLEAAALNVQILLKMHRFDLAEKELKKMQQI  166 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            344455444444444444455567899999999999988744       2223333355677888999999999998744


Q ss_pred             CcHHHHHHHHHHHh----hcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          208 PNAVIWGALLGGCK----LHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       208 p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .+..|.+.|..+++    ..+.+..|.-+|+++.+..|.++...+-...++...|++++|..++++..+..
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            56777777777754    34569999999999999666667777888999999999999999999988653

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.40  E-value=2.4e-05  Score=56.87  Aligned_cols=96  Identities=11%  Similarity=0.041  Sum_probs=82.0

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSSK-FQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      ....-.+...+...|++++|..+|+-+- ..| +..-|..|..++-..|++++|+..+..+..++|+++..+..+..++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            3344456667789999999999999743 455 46667778888899999999999999999999999999999999999


Q ss_pred             hcCCchHHHHHHHHHHhc
Q 043124          256 EVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~~~  273 (331)
                      ..|+.+.|.+.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999988754

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.39  E-value=1.7e-05  Score=63.02  Aligned_cols=198  Identities=11%  Similarity=-0.053  Sum_probs=135.0

Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH-HHHHHh
Q 043124           78 IGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFIS-VLSACT  153 (331)
Q Consensus        78 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~  153 (331)
                      -+++.+..+.+..+++.|++++..-.++   +......+..+|....++..|-..|+++-..  .|...-|.. -...+.
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            3555566666777777777776655443   4456677777777778888888888887664  455444432 245566


Q ss_pred             ccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH--HHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 043124          154 HAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL--LSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  231 (331)
                      +.+.+..|.++...|. +.   ++...-..-+.+  .-..+++..+..++++.+-..+..+.+.......+.|+++.|.+
T Consensus        90 ~A~i~ADALrV~~~~~-D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   90 KACIYADALRVAFLLL-DN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             HhcccHHHHHHHHHhc-CC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHH
Confidence            7788888888888887 31   222111111111  23567888888888887655556665556556778999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCcc
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGS  282 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  282 (331)
                      -|+.+.+..--++..-..+.-+..+.|+++.|+++..++.++|++.. |..
T Consensus       166 kFqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG~r~H-PEl  215 (459)
T KOG4340|consen  166 KFQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERGIRQH-PEL  215 (459)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcC-Ccc
Confidence            99999996544444444577777888999999999999999998765 443

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

Probab=98.39  E-value=0.00064  Score=59.88  Aligned_cols=265  Identities=14%  Similarity=0.121  Sum_probs=150.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC----------------------CchHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG----------------------ALDLGREIH   64 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------------------~~~~a~~~~   64 (331)
                      ..|++|.+.|.+.|.+++|.++|++....  ..+..-|..+..+|+.-.                      +++....-|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            45788888888888888888888877664  224444555555443211                      111112222


Q ss_pred             HHHHHhC-----------CCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---C------ChhhHHHHHHHHHhCCCHH
Q 043124           65 LYVMQIG-----------FDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---K------NLFCWNSIIEGLAVHGFAH  124 (331)
Q Consensus        65 ~~~~~~~-----------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~------~~~~~~~li~~~~~~~~~~  124 (331)
                      +.+...+           -+.++..|..-+..+  .|+..+-..+|.+..+   |      -...|..+...|-..|+.+
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~  404 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLD  404 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHH
Confidence            2222211           111223333322222  2444444555544432   1      1135777888888888888


Q ss_pred             HHHHHHHHHHHcCCCCc---HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCC---------CC-------cHhHHHHHH
Q 043124          125 EALAMFDRMIYENVEPN---GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSI---------TP-------EVEHYGCMV  185 (331)
Q Consensus       125 ~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---------~~-------~~~~~~~l~  185 (331)
                      .|..+|++..+...+.-   ..+|......-.+..+++.|.++.+....--..         .|       +...|...+
T Consensus       405 ~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~  484 (835)
T KOG2047|consen  405 DARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYA  484 (835)
T ss_pred             HHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHH
Confidence            88888888877643321   234444445555667788888877776621000         00       223455555


Q ss_pred             HHHHHcCCHHHHHHHHHhCC----CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC--CCCcchHHHHHHHHHh---
Q 043124          186 DLLSKAGLLEDALELIRSSK----FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE--PNNSGYCTLLLNMYAE---  256 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~~~~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~---  256 (331)
                      +..-..|-++....+++++-    ..|-  ........+-.+.-++++.+++++.+.+.  |.-...|+..+..+.+   
T Consensus       485 DleEs~gtfestk~vYdriidLriaTPq--ii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ryg  562 (835)
T KOG2047|consen  485 DLEESLGTFESTKAVYDRIIDLRIATPQ--IIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYG  562 (835)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHhcCCHH--HHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhc
Confidence            55556667777777776532    2333  22222223445667889999999988855  4555566655554443   


Q ss_pred             cCCchHHHHHHHHHHhcCCCCC
Q 043124          257 VSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       257 ~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      .-+.+.|..+|++.++ |++|.
T Consensus       563 g~klEraRdLFEqaL~-~Cpp~  583 (835)
T KOG2047|consen  563 GTKLERARDLFEQALD-GCPPE  583 (835)
T ss_pred             CCCHHHHHHHHHHHHh-cCCHH
Confidence            2367889999999998 66665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.39  E-value=7.9e-07  Score=47.59  Aligned_cols=33  Identities=36%  Similarity=0.740  Sum_probs=28.2

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPN  141 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  141 (331)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888876

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.38  E-value=0.00017  Score=62.69  Aligned_cols=219  Identities=11%  Similarity=-0.032  Sum_probs=146.6

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCCh--hhHHHHHHHHHhCCCH
Q 043124           46 TVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNL--FCWNSIIEGLAVHGFA  123 (331)
Q Consensus        46 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~li~~~~~~~~~  123 (331)
                      +=++.+...|++++|.+...+++..+ +.+...+..-+-+..+.+++++|+.+.+.-.....  .-+..-..++.+.+..
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccH
Confidence            34466788899999999999999886 55677777778889999999999977665443222  1112334455688999


Q ss_pred             HHHHHHHHHHHHcCCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC-CcHhHHHHHHHHHHHcCCHHHHHHHH
Q 043124          124 HEALAMFDRMIYENVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT-PEVEHYGCMVDLLSKAGLLEDALELI  201 (331)
Q Consensus       124 ~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~  201 (331)
                      ++|+..++-     ..+ +..+...-...|.+.|++++|..+|+.+. +++.. .+...-..+    ...+-...+. ++
T Consensus        96 Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~-kn~~dd~d~~~r~nl----~a~~a~l~~~-~~  164 (652)
T KOG2376|consen   96 DEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLA-KNNSDDQDEERRANL----LAVAAALQVQ-LL  164 (652)
T ss_pred             HHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHH-hcCCchHHHHHHHHH----HHHHHhhhHH-HH
Confidence            999999982     222 33355555677899999999999999998 33322 112222222    2222222222 56


Q ss_pred             HhCCCCCcHHHHHH---HHHHHhhcCCHHHHHHHHHHHHh-----c---CCC-------CcchHHHHHHHHHhcCCchHH
Q 043124          202 RSSKFQPNAVIWGA---LLGGCKLHRNLEIAHIAVNELMI-----L---EPN-------NSGYCTLLLNMYAEVSRWAEV  263 (331)
Q Consensus       202 ~~~~~~p~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~-----~---~p~-------~~~~~~~l~~~~~~~g~~~~a  263 (331)
                      +..+..|+ .+|..   ....+...|++.+|+++++.+.+     +   +-+       -..+...|..++...|+.++|
T Consensus       165 q~v~~v~e-~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea  243 (652)
T KOG2376|consen  165 QSVPEVPE-DSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEA  243 (652)
T ss_pred             HhccCCCc-chHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            66776663 23333   33446789999999999999933     1   111       113445678888999999999


Q ss_pred             HHHHHHHHhcCCCC
Q 043124          264 TKIRVAMKELGIEK  277 (331)
Q Consensus       264 ~~~~~~m~~~~~~~  277 (331)
                      ..++..........
T Consensus       244 ~~iy~~~i~~~~~D  257 (652)
T KOG2376|consen  244 SSIYVDIIKRNPAD  257 (652)
T ss_pred             HHHHHHHHHhcCCC
Confidence            99999988776543

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

Probab=98.37  E-value=0.00013  Score=61.90  Aligned_cols=121  Identities=19%  Similarity=0.185  Sum_probs=99.5

Q ss_pred             HHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHH
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~  228 (331)
                      .....|+.+.|+..++.+.+.  .+-|+..+......+.+.++.++|.+.++++ ...|+ ......+..++.+.|++.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHH
Confidence            456678999999999998833  2455777777788899999999999999874 46676 5566677778999999999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      |.+++++.....|+++..|..|.++|...|+..++.....+....
T Consensus       393 ai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~  437 (484)
T COG4783         393 AIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYAL  437 (484)
T ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHh
Confidence            999999999999999999999999999999988888877776543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.35  E-value=1.1e-06  Score=46.72  Aligned_cols=33  Identities=30%  Similarity=0.516  Sum_probs=25.8

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEP  140 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  140 (331)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            467788888888888888888888888777766

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.31  E-value=0.00015  Score=56.40  Aligned_cols=183  Identities=12%  Similarity=0.072  Sum_probs=136.5

Q ss_pred             CCHHHHHHHHhhcCC--------CCh-hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           90 GSLDRSLLVFFKLRE--------KNL-FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        90 g~~~~a~~~~~~~~~--------~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      .+.++..+++.++..        ++. ..|..++-+....|+.+.|...++++... ++-+...-..-...+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhh
Confidence            344555555554432        222 35667777888899999999999998876 43333322222233556899999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS--KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      |+++|+.+.++.  +.|..++-.=+-..-..|+--+|++-+.+-  .+..|...|.-+...|...|++++|.-.+++++-
T Consensus       105 A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999999543  556667766666677788888888777653  2567899999999999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHhcC---CchHHHHHHHHHHhcCC
Q 043124          239 LEPNNSGYCTLLLNMYAEVS---RWAEVTKIRVAMKELGI  275 (331)
Q Consensus       239 ~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~~~  275 (331)
                      ..|.++.++..+.+.+.-.|   +.+-+..+|.+..+...
T Consensus       183 ~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  183 IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            99999999998988876665   55668888888876654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.31  E-value=9.9e-05  Score=54.25  Aligned_cols=115  Identities=14%  Similarity=0.092  Sum_probs=56.6

Q ss_pred             CCCHHHHHHHHHHHHHcCCCCc---HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc--HhHHHHHHHHHHHcCCH
Q 043124          120 HGFAHEALAMFDRMIYENVEPN---GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE--VEHYGCMVDLLSKAGLL  194 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~  194 (331)
                      .++...+...++.+.+.. +.+   ......+...+...|++++|...|+.+.. ....|+  ......|...+...|++
T Consensus        24 ~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~-~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            556666666666665542 222   12222344555566666666666666662 221121  12233345555566666


Q ss_pred             HHHHHHHHhCCCC-CcHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 043124          195 EDALELIRSSKFQ-PNAVIWGALLGGCKLHRNLEIAHIAVNEL  236 (331)
Q Consensus       195 ~~a~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  236 (331)
                      ++|+..++...-. .....+.....++...|+.++|...|+++
T Consensus       102 d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  102 DEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6666666553211 12233333444456666666666665543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.31  E-value=3.5e-05  Score=69.36  Aligned_cols=241  Identities=13%  Similarity=0.133  Sum_probs=151.2

Q ss_pred             chhhHHHHHH--HHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhC--------CCC
Q 043124            5 DIISWTTMIT--CYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIG--------FDI   74 (331)
Q Consensus         5 ~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~   74 (331)
                      |..|-.+++.  .|...|+.+.|.+-.+-++      +...|..+.+.|.+..+.+-|.-.+-.|....        .+.
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            3344444542  3566788888877766654      34678889999988888887776665554321        111


Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH  154 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  154 (331)
                      +...-....-.-...|.+++|+.+|.+.++     |..|=..|...|.|++|+++-+.--.  +.. ..||-.-...+-.
T Consensus       799 ~~e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DR--iHL-r~Tyy~yA~~Lea  870 (1416)
T KOG3617|consen  799 GEEDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDR--IHL-RNTYYNYAKYLEA  870 (1416)
T ss_pred             CcchhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccc--eeh-hhhHHHHHHHHHh
Confidence            112222233344577899999999988875     44566678888999999988765322  222 2344445555666


Q ss_pred             cCcHHHHHHHHHhhhhcCCC-------------------CCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHH
Q 043124          155 AGLVEEGRRRFLSMTCGYSI-------------------TPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGA  215 (331)
Q Consensus       155 ~~~~~~a~~~~~~~~~~~~~-------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~  215 (331)
                      .++.+.|+..|++.. .+.+                   ..|...|.-....+-..|+.+.|+.++....      -|-.
T Consensus       871 r~Di~~AleyyEK~~-~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~------D~fs  943 (1416)
T KOG3617|consen  871 RRDIEAALEYYEKAG-VHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK------DYFS  943 (1416)
T ss_pred             hccHHHHHHHHHhcC-ChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh------hhhh
Confidence            778888888777543 1110                   1123333333444445677777777776544      3445


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +++..+-+|+.++|-++.++-     .+..+...|.+.|...|++.+|..+|.+..
T Consensus       944 ~VrI~C~qGk~~kAa~iA~es-----gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  944 MVRIKCIQGKTDKAARIAEES-----GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             heeeEeeccCchHHHHHHHhc-----ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            556666677777777766543     234455669999999999999998887764

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.29  E-value=0.00012  Score=65.25  Aligned_cols=140  Identities=15%  Similarity=0.208  Sum_probs=64.3

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcH
Q 043124           79 GSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLV  158 (331)
Q Consensus        79 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  158 (331)
                      |..+.+.|...|+++.|+++|-+.-     .++-.|..|.+.|+|+.|.++-++.  .|...+...|..-..-+-+.|++
T Consensus       768 y~~iadhyan~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~--~~~e~t~~~yiakaedldehgkf  840 (1636)
T KOG3616|consen  768 YGEIADHYANKGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKF  840 (1636)
T ss_pred             chHHHHHhccchhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcch
Confidence            4444555555555555555554432     2334455555555555555554443  22233344444444444555555


Q ss_pred             HHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 043124          159 EEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNE  235 (331)
Q Consensus       159 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  235 (331)
                      .+|.++|-.+.     .|+.     -|..|-+.|..+..+++.++-.-..-..|...+..-+-..|+.+.|+.-|-+
T Consensus       841 ~eaeqlyiti~-----~p~~-----aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~fle  907 (1636)
T KOG3616|consen  841 AEAEQLYITIG-----EPDK-----AIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLE  907 (1636)
T ss_pred             hhhhheeEEcc-----CchH-----HHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHHh
Confidence            55555544433     2321     2344555555555555544321001112333344445555555555554433

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.29  E-value=2e-05  Score=67.12  Aligned_cols=97  Identities=13%  Similarity=0.067  Sum_probs=54.4

Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCH
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNL  226 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  226 (331)
                      ...+...|+++.|+..|++..+..  +.+...|..+..+|...|++++|+..+++. .+.| +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            344455566666666666666221  223455555556666666666666666542 2334 344555555556666666


Q ss_pred             HHHHHHHHHHHhcCCCCcchH
Q 043124          227 EIAHIAVNELMILEPNNSGYC  247 (331)
Q Consensus       227 ~~a~~~~~~~~~~~p~~~~~~  247 (331)
                      ++|...+++++++.|++..+.
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~  107 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFT  107 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHH
Confidence            666666666666666655543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.28  E-value=7e-05  Score=68.75  Aligned_cols=180  Identities=11%  Similarity=-0.007  Sum_probs=117.3

Q ss_pred             CHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHh
Q 043124           91 SLDRSLLVFFKLREKNL---FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLS  167 (331)
Q Consensus        91 ~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  167 (331)
                      +...|...|-+..+.|+   ..|..|...|+..-+...|.+.|++..+.+ +.+..........|++..+++.|..+.-.
T Consensus       473 ~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             hHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            35666666655544443   467778888877777888888888877764 34556666777788888888888777433


Q ss_pred             hhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc
Q 043124          168 MTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG  245 (331)
Q Consensus       168 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  245 (331)
                      ..+......-...|....-.|.+.++...|..-|+. +...| |...|..+..+|...|++..|.++|.++..++|.+.-
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y  631 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKY  631 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHH
Confidence            331211111122333344456677777887777775 34455 5677788888888888888888888888888887654


Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          246 YCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       246 ~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      .-.......+..|++++|+..+....
T Consensus       632 ~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  632 GRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            44445555666777777777776654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.28  E-value=0.0016  Score=59.50  Aligned_cols=223  Identities=15%  Similarity=0.106  Sum_probs=153.7

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHH--HHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHH
Q 043124           16 YSQNKQFREALDAFNEMKNSGISPDQVTMATVLSA--CAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLD   93 (331)
Q Consensus        16 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   93 (331)
                      ....+++.+|+.-..++.+.  .|+.. |...+.+  ..+.|+.++|..+++.....+.. |..+...+-.+|.+.|+.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            34678899999999998876  34433 3334444  46889999999888777665533 8889999999999999999


Q ss_pred             HHHHHHhhcCCC--ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC----------cHHHH
Q 043124           94 RSLLVFFKLREK--NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAG----------LVEEG  161 (331)
Q Consensus        94 ~a~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------~~~~a  161 (331)
                      +|..+|++....  +......+..+|.+.+.+.+-.++--+|-+. ++-+...|.+++......-          -..-|
T Consensus        95 ~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   95 EAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            999999999865  4445555667788888776655554444443 5666777777777655331          13457


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CC-CCC--cHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SK-FQP--NAVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      .+.++.+.++.|-.-+..-.......+-..|++++|.+++.. .. ..+  +...-+.-+..+...+++.+..++..+++
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            778888885554111222222223445678999999999852 22 122  33333455556788899999999999999


Q ss_pred             hcCCCC
Q 043124          238 ILEPNN  243 (331)
Q Consensus       238 ~~~p~~  243 (331)
                      ..++++
T Consensus       254 ~k~~Dd  259 (932)
T KOG2053|consen  254 EKGNDD  259 (932)
T ss_pred             HhCCcc
Confidence            988887

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.27  E-value=0.00055  Score=63.36  Aligned_cols=221  Identities=13%  Similarity=0.062  Sum_probs=124.4

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      ..|+.+.++-.+.|...+|++-|-+.      -|+..|..++..+.+.|.+++-..++..+.+..-.|.  +-+.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHH
Confidence            45888888888888888887766442      2667888888888888888888888776666654444  345688888


Q ss_pred             HhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFL  166 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  166 (331)
                      ++.+++.+.++++   ..||+.....+..-|...|.++.|.-+|...         ..|..|...+...|++..|...-+
T Consensus      1177 Akt~rl~elE~fi---~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aR 1244 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFI---AGPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAAR 1244 (1666)
T ss_pred             HHhchHHHHHHHh---cCCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhh
Confidence            8888888776553   3455555555666666666666665555433         224444444555555555444333


Q ss_pred             hhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          167 SMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       167 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      +..       +..+|..+-.+|...+.+.-|.-+=  +.+-....-..-++..|-..|-+++-..+++..+.+...+..+
T Consensus      1245 KAn-------s~ktWK~VcfaCvd~~EFrlAQiCG--L~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgm 1315 (1666)
T KOG0985|consen 1245 KAN-------STKTWKEVCFACVDKEEFRLAQICG--LNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGM 1315 (1666)
T ss_pred             hcc-------chhHHHHHHHHHhchhhhhHHHhcC--ceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHH
Confidence            222       3334444444444433332221100  0011122233344555555555555555555555544444444


Q ss_pred             HHHHHHHHHh
Q 043124          247 CTLLLNMYAE  256 (331)
Q Consensus       247 ~~~l~~~~~~  256 (331)
                      |..|...|++
T Consensus      1316 fTELaiLYsk 1325 (1666)
T KOG0985|consen 1316 FTELAILYSK 1325 (1666)
T ss_pred             HHHHHHHHHh
Confidence            4444444444

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.27  E-value=2.7e-06  Score=53.52  Aligned_cols=52  Identities=13%  Similarity=0.180  Sum_probs=44.2

Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ...|++++|.+.++++....|++..++..++.+|.+.|++++|..+++++..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4678889999999999998998888888899999999999999998888764

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.26  E-value=1.4e-06  Score=45.13  Aligned_cols=31  Identities=39%  Similarity=0.829  Sum_probs=26.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGI   37 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   37 (331)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888888764

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.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=98.23  E-value=0.0019  Score=53.85  Aligned_cols=110  Identities=10%  Similarity=0.151  Sum_probs=77.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhc
Q 043124          144 TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLH  223 (331)
Q Consensus       144 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~  223 (331)
                      +.+..+.-|...|+...|.++-.+..     .|+...|-..+.+++..++|++-..+... +  -++..|..++.+|.+.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-k--KsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK-----VPDKRFWWLKIKALAENKDWDELEKFAKS-K--KSPIGYEPFVEACLKY  250 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC-----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C--CCCCChHHHHHHHHHC
Confidence            44455666677787777777766655     57778888888888888888887776554 2  2346777788888888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          224 RNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      |+..+|..+..++        . +..-+..|.+.|++.+|.+.--+.
T Consensus       251 ~~~~eA~~yI~k~--------~-~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  251 GNKKEASKYIPKI--------P-DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             CCHHHHHHHHHhC--------C-hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            8888888777661        1 255677788888888887665443

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

>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=2.4e-05  Score=52.36  Aligned_cols=93  Identities=20%  Similarity=0.196  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          181 YGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       181 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      +..+...+...|++++|...+++. ...|+ ...+..+...+...+++++|.+.+++.....|.+...+..++..+...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445566677778888888777763 33343 3556666666777788888888888888877777777777888888888


Q ss_pred             CchHHHHHHHHHHhc
Q 043124          259 RWAEVTKIRVAMKEL  273 (331)
Q Consensus       259 ~~~~a~~~~~~m~~~  273 (331)
                      +++.|...+++..+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            888888888776543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.21  E-value=1.8e-05  Score=63.04  Aligned_cols=101  Identities=20%  Similarity=0.160  Sum_probs=75.2

Q ss_pred             HHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcCCHHH
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~~  228 (331)
                      -+.+.+++.+|+..|.+.+ ... +-|...|..-..+|++.|.++.|++-.+. +.+.|. ..+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI-~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAI-ELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHH-hcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            3567788888888888888 221 33566777778888888888888776664 456665 6788888888888888888


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      |.+.|+++++++|++..+...|-.+
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHHH
Confidence            8888888888888877555544433

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

Probab=98.18  E-value=0.00077  Score=57.47  Aligned_cols=110  Identities=13%  Similarity=0.093  Sum_probs=66.9

Q ss_pred             HccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC--C-hhhHHHHHHHHHhCCCHHHHHH
Q 043124           52 AHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK--N-LFCWNSIIEGLAVHGFAHEALA  128 (331)
Q Consensus        52 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~-~~~~~~li~~~~~~~~~~~a~~  128 (331)
                      ...|+++.|+..++.+++. .+-|...+......+.+.|+..+|.+.++++...  + ...+-.+..+|.+.|++.+|..
T Consensus       317 ~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            3556666666666666555 2345555555566666666666666666666542  2 3345556666666666666666


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHH
Q 043124          129 MFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRR  163 (331)
Q Consensus       129 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  163 (331)
                      +++...... +-|+..|..|..+|...|+..++..
T Consensus       396 ~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~  429 (484)
T COG4783         396 ILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALL  429 (484)
T ss_pred             HHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHH
Confidence            666665543 5566666666666666666555443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.18  E-value=0.0026  Score=52.88  Aligned_cols=247  Identities=14%  Similarity=0.106  Sum_probs=155.6

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHh--hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHH
Q 043124           18 QNKQFREALDAFNEMKNSGISPDQV--TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRS   95 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a   95 (331)
                      -.|+++.|.+-|+.|...   |...  -...|.-...+.|+.+.|.++-+..-..- +.-...+...+...+..|+|+.|
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            357777777777777652   2221  22233334456677777777766665543 22356677778888888888888


Q ss_pred             HHHHhhcCC-----CChh--hHHHHHHHHH---hCCCHHHHHHHHHHHHHcCCCCcHH-HHHHHHHHHhccCcHHHHHHH
Q 043124           96 LLVFFKLRE-----KNLF--CWNSIIEGLA---VHGFAHEALAMFDRMIYENVEPNGV-TFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        96 ~~~~~~~~~-----~~~~--~~~~li~~~~---~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      +++++.-.+     +++.  .--.|+.+-.   -..+...|...-.+..+.  .|+.. .-.....++.+.|+..++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhH
Confidence            888775442     3332  1112222211   123455566555555443  45432 223355788899999999999


Q ss_pred             HHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh---C-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Q 043124          165 FLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS---S-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMIL  239 (331)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  239 (331)
                      ++.+. +.  .|.+..+...  .+.+.|+.  +++-++.   + .++| +..+-..+..+....|++..|..--+.+...
T Consensus       286 lE~aW-K~--ePHP~ia~lY--~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~  358 (531)
T COG3898         286 LETAW-KA--EPHPDIALLY--VRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE  358 (531)
T ss_pred             HHHHH-hc--CCChHHHHHH--HHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            99999 33  5555555432  23455543  3333332   1 1345 4666777888888999999999988888888


Q ss_pred             CCCCcchHHHHHHHHHh-cCCchHHHHHHHHHHhcCCCCC
Q 043124          240 EPNNSGYCTLLLNMYAE-VSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       240 ~p~~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      .|. ..+|..|.+.-.- .|+-.++.+.+.+.....-.|.
T Consensus       359 ~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~APrdPa  397 (531)
T COG3898         359 APR-ESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDPA  397 (531)
T ss_pred             Cch-hhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCCc
Confidence            898 6677777776654 4999999999999887765555

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.17  E-value=9.1e-05  Score=56.21  Aligned_cols=109  Identities=19%  Similarity=0.142  Sum_probs=50.9

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHH
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDID--VYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLA  118 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~  118 (331)
                      +..+...+...|++++|...+++..+....+.  ...+..+..++.+.|++++|...+++..+   .+...+..+...+.
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            44444444445555555555555444322111  23444445555555555555555544432   12333444444444


Q ss_pred             hCCC--------------HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC
Q 043124          119 VHGF--------------AHEALAMFDRMIYENVEPNGVTFISVLSACTHAG  156 (331)
Q Consensus       119 ~~~~--------------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  156 (331)
                      ..|+              +++|.+++++....+  |+.  +..++..+...|
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~--p~~--~~~~~~~~~~~~  165 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA--PNN--YIEAQNWLKTTG  165 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC--chh--HHHHHHHHHhcC
Confidence            4333              566777777766643  332  444444444433

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.16  E-value=8.3e-06  Score=51.42  Aligned_cols=65  Identities=22%  Similarity=0.124  Sum_probs=58.0

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC-CchHHHHHHHHHHhc
Q 043124          209 NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS-RWAEVTKIRVAMKEL  273 (331)
Q Consensus       209 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~  273 (331)
                      +...|..+...+...|++++|+..|+++++.+|+++.+|..+..+|.+.| ++++|+..+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            45677888888999999999999999999999999999999999999999 799999999987754

...

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.16  E-value=5.4e-05  Score=53.40  Aligned_cols=92  Identities=14%  Similarity=-0.051  Sum_probs=44.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhCC-CCCc----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHH
Q 043124          182 GCMVDLLSKAGLLEDALELIRSSK-FQPN----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN---SGYCTLLLNM  253 (331)
Q Consensus       182 ~~l~~~~~~~~~~~~a~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  253 (331)
                      -.++..+.+.|++++|.+.+++.. ..|+    ...+..+..++...|+++.|...++.+....|++   ...+..+..+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            334444555555555555554421 1121    2233344444555555555555555555544442   2334445555


Q ss_pred             HHhcCCchHHHHHHHHHHhc
Q 043124          254 YAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       254 ~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +.+.|++++|...++++.+.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHH
Confidence            55555555555555555543

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.16  E-value=0.00069  Score=60.73  Aligned_cols=74  Identities=18%  Similarity=0.213  Sum_probs=35.2

Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      ...+.|.+|+.+++.+...+  .-..-|..+..-|+..|+++.|.++|-+.-          .++--|..|.+.|+++.|
T Consensus       743 i~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccHHHH
Confidence            34445555555555554432  122234444455555555555555554432          123334455555555555


Q ss_pred             HHHHHh
Q 043124          198 LELIRS  203 (331)
Q Consensus       198 ~~~~~~  203 (331)
                      .++-.+
T Consensus       811 ~kla~e  816 (1636)
T KOG3616|consen  811 FKLAEE  816 (1636)
T ss_pred             HHHHHH
Confidence            555443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.12  E-value=4.8e-05  Score=63.19  Aligned_cols=261  Identities=11%  Similarity=0.034  Sum_probs=171.4

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHccCCchHHHHHHHHH--HHh--CCC-CchhHHHHHHH
Q 043124           14 TCYSQNKQFREALDAFNEMKNSGISPDQ----VTMATVLSACAHLGALDLGREIHLYV--MQI--GFD-IDVYIGSALVD   84 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~--~~~-~~~~~~~~l~~   84 (331)
                      .-+++.|+......+|+...+.|-. |.    .+|+.|.++|.-.+++++|+++...=  +..  |-+ -.......|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            4478999999999999999998743 43    35677777888888999998876431  111  111 12334455677


Q ss_pred             HHHhhCCHHHHHHHHhhcCC-------C--ChhhHHHHHHHHHhCCC--------------------HHHHHHHHHHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLRE-------K--NLFCWNSIIEGLAVHGF--------------------AHEALAMFDRMIY  135 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~-------~--~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~  135 (331)
                      .+--.|.+++|...-.+-..       +  ...++..+...|...|+                    ++.|.+.|.+=++
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            77777888888765433221       1  23456666777765543                    2334444433221


Q ss_pred             ----cC-CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh---hcCCCC-CcHhHHHHHHHHHHHcCCHHHHHHHHHh---
Q 043124          136 ----EN-VEPNGVTFISVLSACTHAGLVEEGRRRFLSMT---CGYSIT-PEVEHYGCMVDLLSKAGLLEDALELIRS---  203 (331)
Q Consensus       136 ----~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~---  203 (331)
                          .| --.-...|..|...|.-.|+++.|+...+.-.   +.+|-. .....+..|..++.-.|+++.|.+.++.   
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~  263 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLN  263 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHH
Confidence                11 01112345555556666789999887655422   233322 2356778888899999999999988874   


Q ss_pred             ----CC-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC------CCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          204 ----SK-FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE------PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       204 ----~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                          ++ -.....++.+|...|.-..++++|+.++.+-+.+.      ......+..|..+|...|..++|+.+.+.-.+
T Consensus       264 LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  264 LAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence                33 23456678889999999999999999998877621      23456678899999999999999998887765


Q ss_pred             cCC
Q 043124          273 LGI  275 (331)
Q Consensus       273 ~~~  275 (331)
                      ...
T Consensus       344 ~s~  346 (639)
T KOG1130|consen  344 SSL  346 (639)
T ss_pred             HHH
Confidence            443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.11  E-value=1.3e-05  Score=49.90  Aligned_cols=58  Identities=19%  Similarity=0.162  Sum_probs=48.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +...+...|++++|.+.|+++++..|++...+..++.++...|++++|..+|+++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4456788889999999999999988988888888899999999999999998888754

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.10  E-value=0.00061  Score=56.20  Aligned_cols=93  Identities=10%  Similarity=0.060  Sum_probs=41.6

Q ss_pred             HHHHHHHHHhC-CCHHHHHHHHHHHHHc----CCCCc--HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC----CCCcH
Q 043124          110 WNSIIEGLAVH-GFAHEALAMFDRMIYE----NVEPN--GVTFISVLSACTHAGLVEEGRRRFLSMTCGYS----ITPEV  178 (331)
Q Consensus       110 ~~~li~~~~~~-~~~~~a~~~~~~m~~~----~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~  178 (331)
                      +..+...|-.. |++++|.+.|++..+.    | .+.  ...+..+...+.+.|++++|..+|+++....-    ...+.
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhH
Confidence            33444555555 5666666666655432    2 111  23344455556666666666666666552210    01111


Q ss_pred             h-HHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          179 E-HYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       179 ~-~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                      . .+-..+-++...|++..|...+++
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~  221 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALER  221 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            1 222223344555666666666654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.10  E-value=0.0001  Score=51.96  Aligned_cols=101  Identities=14%  Similarity=0.047  Sum_probs=55.7

Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHH
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN----AVIWGALLGG  219 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~  219 (331)
                      ..+...+.+.|++++|...|..+.....-.+ ....+..+..++.+.|++++|...++.. ...|+    ...+..+..+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            3444555566666666666666653221101 1234444556666666666666666643 12222    3345555556


Q ss_pred             HhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          220 CKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      +...|+.++|.+.++++++..|++...
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHHCcCChhH
Confidence            666777777777777777766665544

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=98.09  E-value=5.7e-05  Score=50.42  Aligned_cols=92  Identities=15%  Similarity=0.126  Sum_probs=56.9

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      |..+...+...|++++|...|++..+.. +.+...+..+..++...++++.|.+.++...+.. +.+..++..+..++..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            4556666666777777777777766553 2233555566666666677777777776666653 2334455566666666


Q ss_pred             hCCHHHHHHHHhhc
Q 043124           89 CGSLDRSLLVFFKL  102 (331)
Q Consensus        89 ~g~~~~a~~~~~~~  102 (331)
                      .|++++|...+...
T Consensus        81 ~~~~~~a~~~~~~~   94 (100)
T cd00189          81 LGKYEEALEAYEKA   94 (100)
T ss_pred             HHhHHHHHHHHHHH
Confidence            66666666666554

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.08  E-value=5e-06  Score=54.78  Aligned_cols=80  Identities=19%  Similarity=0.142  Sum_probs=32.9

Q ss_pred             CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHH
Q 043124          156 GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPN-AVIWGALLGGCKLHRNLEIAHIAVN  234 (331)
Q Consensus       156 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  234 (331)
                      |+++.|+.+++++.+.....++...+-.+..+|.+.|++++|+.++++....|+ ......+..++.+.|++++|.+.++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            445555555555552211111222333344555555555555555544222222 1222233344455555555555544


Q ss_pred             H
Q 043124          235 E  235 (331)
Q Consensus       235 ~  235 (331)
                      +
T Consensus        83 ~   83 (84)
T PF12895_consen   83 K   83 (84)
T ss_dssp             H
T ss_pred             c
Confidence            3

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.07  E-value=0.00014  Score=59.75  Aligned_cols=128  Identities=12%  Similarity=0.077  Sum_probs=98.6

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHH-HHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSA-CAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ..|-.+++...+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+. ++.+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            468889999999999999999999998653 2344555544444 33457777899999999887 56788889999999


Q ss_pred             HHhhCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124           86 YAKCGSLDRSLLVFFKLREK------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      +.+.|+.+.|..+|++....      -...|...+..-.+.|+.+.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999988753      2347888888888899999999999888875

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.06  E-value=6.8e-06  Score=42.46  Aligned_cols=29  Identities=38%  Similarity=0.535  Sum_probs=20.5

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYEN  137 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~  137 (331)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56777777777777777777777776655

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.05  E-value=1.6e-05  Score=52.32  Aligned_cols=81  Identities=15%  Similarity=0.210  Sum_probs=44.2

Q ss_pred             CCCHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHH
Q 043124          120 HGFAHEALAMFDRMIYENVE-PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDAL  198 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  198 (331)
                      .|+++.|+.+++++.+.... ++...+..+..++.+.|++++|..+++. . ..+. .+....-.+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~-~~~~-~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L-KLDP-SNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H-THHH-CHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h-CCCC-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            46667777777777665321 1333344466667777777777777766 2 1111 12233334466666777777777


Q ss_pred             HHHHh
Q 043124          199 ELIRS  203 (331)
Q Consensus       199 ~~~~~  203 (331)
                      +.+++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66653

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.05  E-value=0.00036  Score=57.38  Aligned_cols=132  Identities=14%  Similarity=0.126  Sum_probs=76.4

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH-HhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA-CTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL  187 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  187 (331)
                      +|..++...-+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|.++|+...+.+  ..+...|...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            46666666666666777777777776443 2222333332222 223455666777777766443  4455666666777


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCCcH----HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          188 LSKAGLLEDALELIRSS-KFQPNA----VIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~~-~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      +.+.++.+.|..+|++. ..-|..    ..|...+..-.+.|+.+.+.++.+++.+.-|.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            77777777777777652 222222    367777777667777777777777777766653

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.04  E-value=0.00019  Score=54.26  Aligned_cols=92  Identities=17%  Similarity=0.090  Sum_probs=54.9

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC--chhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDI--DVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIE  115 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~  115 (331)
                      ...|..+...+...|++++|...++........+  ...++..+..++...|++++|+..+++....   ...++..+..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            3455566666666777777777777776553222  2246666777777777777777777665432   2334444554


Q ss_pred             HHH-------hCCCHHHHHHHHHH
Q 043124          116 GLA-------VHGFAHEALAMFDR  132 (331)
Q Consensus       116 ~~~-------~~~~~~~a~~~~~~  132 (331)
                      .+.       ..|+++.|...+++
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHH
Confidence            444       66776655444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.04  E-value=0.00066  Score=60.57  Aligned_cols=138  Identities=10%  Similarity=0.033  Sum_probs=68.8

Q ss_pred             ChhhHHHHHHHHHhC--C---CHHHHHHHHHHHHHcCCCCc-HHHHHHHHHHHhcc--------CcHHHHHHHHHhhhhc
Q 043124          106 NLFCWNSIIEGLAVH--G---FAHEALAMFDRMIYENVEPN-GVTFISVLSACTHA--------GLVEEGRRRFLSMTCG  171 (331)
Q Consensus       106 ~~~~~~~li~~~~~~--~---~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~--------~~~~~a~~~~~~~~~~  171 (331)
                      +..+|...+.+....  +   +...|..+|++..+..  |+ ...+..+..++...        .++..+.+........
T Consensus       336 ~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al  413 (517)
T PRK10153        336 QGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVAL  413 (517)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhc
Confidence            455666666654332  2   2556777777776653  33 33343332222111        1122333333332211


Q ss_pred             CCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc
Q 043124          172 YSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG  245 (331)
Q Consensus       172 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  245 (331)
                      .....+...|..+.-.....|++++|...+++. ...|+...|..+...+...|+.++|.+.++++..++|.+++
T Consensus       414 ~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        414 PELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             ccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            112223345555544444556666666666542 34555555666666666666666666666666666666554

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.03  E-value=9.8e-05  Score=49.95  Aligned_cols=81  Identities=11%  Similarity=0.094  Sum_probs=63.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCcHHHHHHHHHHHhccC--------cHHHHHHHHHhhhhcCCCCCcHh
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENV-EPNGVTFISVLSACTHAG--------LVEEGRRRFLSMTCGYSITPEVE  179 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  179 (331)
                      +....|..+...+++...-.+|+.++..|+ .|+..+|+.++.+.++..        ..-+...+|+.|. ..+++|+..
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL-~~~lKP~~e  105 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDIL-SNKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHH-HhccCCcHH
Confidence            344556667777999999999999999998 889999999988876542        3446678888888 678889989


Q ss_pred             HHHHHHHHHHH
Q 043124          180 HYGCMVDLLSK  190 (331)
Q Consensus       180 ~~~~l~~~~~~  190 (331)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            99888877654

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 [, , ].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=0.00067  Score=56.62  Aligned_cols=257  Identities=13%  Similarity=0.014  Sum_probs=160.2

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      ...+.+..++..|+..+....+.. +-+..-|..-...+...|+++++.--.++-.+.. +-....+.-.-+++...++.
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~~~  133 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALSDL  133 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhHHH
Confidence            344556667778888888887764 2234445555555555666666655444433321 11122333334444444444


Q ss_pred             HHHHHHHhhc---------------CC-----CChhhHHHH-HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 043124           93 DRSLLVFFKL---------------RE-----KNLFCWNSI-IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA  151 (331)
Q Consensus        93 ~~a~~~~~~~---------------~~-----~~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  151 (331)
                      .+|.+.++.-               ..     |....|..+ ..++.-.|++++|..+--..++.+ +.+......=..+
T Consensus       134 i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~  212 (486)
T KOG0550|consen  134 IEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLC  212 (486)
T ss_pred             HHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccc
Confidence            4444443311               11     111223222 335666788888888877777653 2233222222233


Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcHhHH---HHHH----------HHHHHcCCHHHHHHHHHh-CCCC-----CcHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEVEHY---GCMV----------DLLSKAGLLEDALELIRS-SKFQ-----PNAVI  212 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~----------~~~~~~~~~~~a~~~~~~-~~~~-----p~~~~  212 (331)
                      +.-.++.+.|...|++..   ...|+...-   ....          .-..+.|++..|.+.+.+ +++.     |+...
T Consensus       213 ~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nakl  289 (486)
T KOG0550|consen  213 LYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKL  289 (486)
T ss_pred             cccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHH
Confidence            456788999999999988   234542211   1111          223578999999999986 4444     45556


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCC
Q 043124          213 WGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGI  275 (331)
Q Consensus       213 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  275 (331)
                      |........+.|+.++|+.-.+++++++|.....|..-..++.-.++|++|.+-++...+..-
T Consensus       290 Y~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~  352 (486)
T KOG0550|consen  290 YGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEK  352 (486)
T ss_pred             HHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            666666788999999999999999999999888888889999999999999999998876543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.03  E-value=9.3e-05  Score=59.04  Aligned_cols=102  Identities=21%  Similarity=0.214  Sum_probs=84.8

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcC
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAG  192 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  192 (331)
                      ..-+.+.+++.+|+..|.+.++.. +-|.+.|..=..+|++.|.++.|++-.+...   .+.|. ...|..|..+|...|
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccC
Confidence            445778899999999999999974 5677888888999999999999999888877   23444 678999999999999


Q ss_pred             CHHHHHHHHHh-CCCCCcHHHHHHHHHH
Q 043124          193 LLEDALELIRS-SKFQPNAVIWGALLGG  219 (331)
Q Consensus       193 ~~~~a~~~~~~-~~~~p~~~~~~~l~~~  219 (331)
                      ++++|++.|++ +.+.|+-.+|-.=+..
T Consensus       164 k~~~A~~aykKaLeldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELDPDNESYKSNLKI  191 (304)
T ss_pred             cHHHHHHHHHhhhccCCCcHHHHHHHHH
Confidence            99999999987 5688987766555544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.02  E-value=0.0024  Score=59.42  Aligned_cols=236  Identities=12%  Similarity=0.120  Sum_probs=170.9

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      .-|...|..++....+.|.+++-...+.-.++..-+|...+  .|+-+|++.++..+.+++.       ..|+......+
T Consensus      1130 adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~v 1200 (1666)
T KOG0985|consen 1130 ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTELEEFI-------AGPNVANIQQV 1200 (1666)
T ss_pred             cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHHHHHHh-------cCCCchhHHHH
Confidence            45788899999999999999999999887777766666554  7889999999988776654       36788888888


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      .+-|...|.++.|.-+|..+     .-|..|...+...|++..|...-++.      .+..||-.+-.+|...+.+.-|.
T Consensus      1201 Gdrcf~~~~y~aAkl~y~~v-----SN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlAQ 1269 (1666)
T KOG0985|consen 1201 GDRCFEEKMYEAAKLLYSNV-----SNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLAQ 1269 (1666)
T ss_pred             hHHHhhhhhhHHHHHHHHHh-----hhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHHH
Confidence            99999999999998887654     46888999999999999888776553      36678888888888877765443


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCC-CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh-c
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQ-PNAVIWGALLGGCKLHRNLEIAHIAVNELMI-L  239 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~  239 (331)
                           |- ..++.....-..-++..|-..|-+++.+.+++. +|.. .....|+.|.-.|++- ++++..+.++-... +
T Consensus      1270 -----iC-GL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky-kp~km~EHl~LFwsRv 1342 (1666)
T KOG0985|consen 1270 -----IC-GLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY-KPEKMMEHLKLFWSRV 1342 (1666)
T ss_pred             -----hc-CceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhc
Confidence                 22 233344556677888999999999999999885 4532 3455566665555543 44544444444433 1


Q ss_pred             C-------CCCcchHHHHHHHHHhcCCchHHHH
Q 043124          240 E-------PNNSGYCTLLLNMYAEVSRWAEVTK  265 (331)
Q Consensus       240 ~-------p~~~~~~~~l~~~~~~~g~~~~a~~  265 (331)
                      +       .+....|..|.-.|.+-..|+.|.-
T Consensus      1343 NipKviRA~eqahlW~ElvfLY~~y~eyDNAa~ 1375 (1666)
T KOG0985|consen 1343 NIPKVIRAAEQAHLWSELVFLYDKYEEYDNAAL 1375 (1666)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence            1       2235567777777777777776543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.02  E-value=0.00014  Score=55.25  Aligned_cols=82  Identities=13%  Similarity=0.022  Sum_probs=58.2

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      ...+..+...+...|++++|...+++. ...|+    ...+..+...+...|++++|...+++++...|++...+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            344556666677777777777777653 22222    3566677777888888888888888888888887777777788


Q ss_pred             HHHhcCC
Q 043124          253 MYAEVSR  259 (331)
Q Consensus       253 ~~~~~g~  259 (331)
                      ++...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            8877766

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.00  E-value=0.00077  Score=55.60  Aligned_cols=124  Identities=15%  Similarity=0.128  Sum_probs=75.9

Q ss_pred             HHHHHHHHhcc-CcHHHHHHHHHhhhhcCCC--CC--cHhHHHHHHHHHHHcCCHHHHHHHHHhCC--------CCCcHH
Q 043124          145 FISVLSACTHA-GLVEEGRRRFLSMTCGYSI--TP--EVEHYGCMVDLLSKAGLLEDALELIRSSK--------FQPNAV  211 (331)
Q Consensus       145 ~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~p~~~  211 (331)
                      +..+...|... |+++.|...|++..+-+.-  .+  -..++..+...+.+.|++++|.++|++..        .+.+..
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~  196 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAK  196 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHH
Confidence            34455567777 8999999999887642211  11  14566777888999999999999998642        122222


Q ss_pred             -HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc-----chHHHHHHHHHhcCCch---HHHHHHHH
Q 043124          212 -IWGALLGGCKLHRNLEIAHIAVNELMILEPNNS-----GYCTLLLNMYAEVSRWA---EVTKIRVA  269 (331)
Q Consensus       212 -~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-----~~~~~l~~~~~~~g~~~---~a~~~~~~  269 (331)
                       .+...+-++...||...|.+.+++.....|.-.     .+...|+.++. .|+.+   .++.-|+.
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~-~~D~e~f~~av~~~d~  262 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE-EGDVEAFTEAVAEYDS  262 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH-TT-CCCHHHHCHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH-hCCHHHHHHHHHHHcc
Confidence             233344456778999999999999998877432     23345666664 34444   44444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.99  E-value=0.0003  Score=49.30  Aligned_cols=106  Identities=13%  Similarity=0.064  Sum_probs=65.2

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCC--HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC--chhHHHHHHHHHH
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPD--QVTMATVLSACAHLGALDLGREIHLYVMQIGFDI--DVYIGSALVDMYA   87 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~   87 (331)
                      +..++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|..++++.......+  +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            45566677888888888888877775543  2355566777777888888888887776652110  2222233344566


Q ss_pred             hhCCHHHHHHHHhhcCCCChhhHHHHHHHH
Q 043124           88 KCGSLDRSLLVFFKLREKNLFCWNSIIEGL  117 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~  117 (331)
                      ..|+.++|.+.+-....++...|.--|..|
T Consensus        87 ~~gr~~eAl~~~l~~la~~~~~y~ra~~~y  116 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALAETLPRYRRAIRFY  116 (120)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777776655444444444444444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.99  E-value=0.00019  Score=48.61  Aligned_cols=79  Identities=14%  Similarity=0.104  Sum_probs=65.6

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCC-CCCHhhHHHHHHHHHccC--------CchHHHHHHHHHHHhCCCCchhHHH
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGI-SPDQVTMATVLSACAHLG--------ALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      ..-|..|...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ..-..+.+++.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456777788999999999999999999 899999999998876543        2345677889999999999999999


Q ss_pred             HHHHHHHh
Q 043124           81 ALVDMYAK   88 (331)
Q Consensus        81 ~l~~~~~~   88 (331)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99887765

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 [, , ].

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.97  E-value=7.3e-05  Score=57.03  Aligned_cols=89  Identities=12%  Similarity=0.175  Sum_probs=75.0

Q ss_pred             CCchhhHHHHHHHHHhC-----CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC----------------CchHHH
Q 043124            3 ARDIISWTTMITCYSQN-----KQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG----------------ALDLGR   61 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------------~~~~a~   61 (331)
                      ..|..+|..++..|.+.     |..+-....++.|.+-|+.-|..+|+.|+.++-+..                +.+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            56788899999998865     677778888899999999999999999999876522                447889


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhhCC
Q 043124           62 EIHLYVMQIGFDIDVYIGSALVDMYAKCGS   91 (331)
Q Consensus        62 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~   91 (331)
                      +++++|...|+-||..++..+++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            999999999999999999999999877654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.97  E-value=0.00018  Score=54.36  Aligned_cols=94  Identities=10%  Similarity=-0.137  Sum_probs=72.6

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLL  251 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  251 (331)
                      ....|..+...+...|++++|+..|++. ...|+    ..++..+...+...|++++|...+++++...|.....+..+.
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3556677777788889999998888863 22232    346777888899999999999999999998888888777788


Q ss_pred             HHHH-------hcCCchHHHHHHHHH
Q 043124          252 NMYA-------EVSRWAEVTKIRVAM  270 (331)
Q Consensus       252 ~~~~-------~~g~~~~a~~~~~~m  270 (331)
                      ..+.       ..|+++.|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            7877       788888766666554

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.96  E-value=0.0003  Score=60.39  Aligned_cols=120  Identities=12%  Similarity=0.052  Sum_probs=91.6

Q ss_pred             CCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Q 043124           71 GFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVT  144 (331)
Q Consensus        71 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  144 (331)
                      +.+.+......+++.+....+++.+..++.+....      -..+.+++++.|...|..+.++.++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33455666777788887888888888888777642      234667899999999999999999988888899999999


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc
Q 043124          145 FISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA  191 (331)
Q Consensus       145 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  191 (331)
                      ++.|+..+.+.|++..|.++...|. ..+...+..++..-+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~-lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMM-LQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHH-HhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999888877 344445555655545554444

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 [].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.96  E-value=0.00026  Score=60.37  Aligned_cols=104  Identities=12%  Similarity=-0.003  Sum_probs=83.5

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc
Q 043124          112 SIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA  191 (331)
Q Consensus       112 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  191 (331)
                      .....+...|++++|++.|+++++.+ +-+...|..+..+|...|++++|+..++++....  +.+...|..+..+|...
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~--P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD--PSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHh
Confidence            34566778899999999999999875 4567788888899999999999999999998332  33577888889999999


Q ss_pred             CCHHHHHHHHHh-CCCCCcHHHHHHHHH
Q 043124          192 GLLEDALELIRS-SKFQPNAVIWGALLG  218 (331)
Q Consensus       192 ~~~~~a~~~~~~-~~~~p~~~~~~~l~~  218 (331)
                      |++++|+..|++ +.+.|+.......+.
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l~  111 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLIK  111 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            999999999987 346676555444443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.90  E-value=0.0015  Score=60.48  Aligned_cols=174  Identities=13%  Similarity=0.129  Sum_probs=100.5

Q ss_pred             hhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhh
Q 043124           22 FREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFK  101 (331)
Q Consensus        22 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  101 (331)
                      ...|+..|-+..+... .=...|..|...|+...+...|...|+.+.+.. ..+........+.|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            5555555555554421 123466677777766666677777777666654 23555666667777777777777776443


Q ss_pred             cCCCCh-----hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC
Q 043124          102 LREKNL-----FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP  176 (331)
Q Consensus       102 ~~~~~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  176 (331)
                      ..+.+.     ..|....-.|...++...|..-|+...... |-|...+..+..+|.+.|.+..|.++|.+.. .  +.|
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs-~--LrP  627 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKAS-L--LRP  627 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhH-h--cCc
Confidence            333221     233344555666677777777777666553 3455666677777777777777777776665 1  233


Q ss_pred             cHhHHHH--HHHHHHHcCCHHHHHHHHH
Q 043124          177 EVEHYGC--MVDLLSKAGLLEDALELIR  202 (331)
Q Consensus       177 ~~~~~~~--l~~~~~~~~~~~~a~~~~~  202 (331)
                      +. .|..  ..-..+..|.+.+|.+.+.
T Consensus       628 ~s-~y~~fk~A~~ecd~GkYkeald~l~  654 (1238)
T KOG1127|consen  628 LS-KYGRFKEAVMECDNGKYKEALDALG  654 (1238)
T ss_pred             Hh-HHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            31 2221  1223455667777666554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.88  E-value=6.5e-05  Score=47.86  Aligned_cols=57  Identities=14%  Similarity=0.096  Sum_probs=50.3

Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          218 GGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      ..+.+.++++.|.+++++++..+|+++..+...+.++.+.|++++|...+++..+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            457888999999999999999999999999999999999999999999999988554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.87  E-value=0.0053  Score=45.79  Aligned_cols=147  Identities=12%  Similarity=0.072  Sum_probs=82.5

Q ss_pred             HHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC----CChhhHHHHHHHHHhCCC
Q 043124           47 VLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE----KNLFCWNSIIEGLAVHGF  122 (331)
Q Consensus        47 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~  122 (331)
                      +..+..+.=|++...+-..+-.  ...|++...-.|..+..+.|+..+|...|++...    .|....-.+..+....++
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            3334444444544333222222  2345666666667777777777777777766543    355566666666666777


Q ss_pred             HHHHHHHHHHHHHcC---CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHH
Q 043124          123 AHEALAMFDRMIYEN---VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALE  199 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  199 (331)
                      +..|...++++.+.+   -.||  +...+.+.+...|....|+.-|+... ++  .|+...-......+.+.|+..++..
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~a  214 (251)
T COG4700         140 FAAAQQTLEDLMEYNPAFRSPD--GHLLFARTLAAQGKYADAESAFEVAI-SY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHHHHHhhcCCccCCCC--chHHHHHHHHhcCCchhHHHHHHHHH-Hh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            777777777766543   2222  33445566667777777777777766 33  3443333333444566666655544


Q ss_pred             H
Q 043124          200 L  200 (331)
Q Consensus       200 ~  200 (331)
                      -
T Consensus       215 q  215 (251)
T COG4700         215 Q  215 (251)
T ss_pred             H
Confidence            3

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.83  E-value=0.00053  Score=49.95  Aligned_cols=94  Identities=4%  Similarity=-0.119  Sum_probs=77.4

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC---CCChhhHHHHHHHHH
Q 043124           42 VTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR---EKNLFCWNSIIEGLA  118 (331)
Q Consensus        42 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~  118 (331)
                      ...-.+...+...|++++|..+|+.+.... +-+..-|-.|.-++-..|++++|+..|....   ..|+.++..+..++.
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            344456666778899999999999988875 3366677788999999999999999998654   347788999999999


Q ss_pred             hCCCHHHHHHHHHHHHHc
Q 043124          119 VHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       119 ~~~~~~~a~~~~~~m~~~  136 (331)
                      ..|+.+.|.+.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999988765

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.82  E-value=0.0025  Score=56.97  Aligned_cols=58  Identities=9%  Similarity=-0.016  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          143 VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       143 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                      ..|..+...+...|++++|...+++.. ..  .|+...|..+.+.+...|+.++|.+.+++
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl-~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAI-DL--EMSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH-Hc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344444333334455555555555555 11  23444555555555555555555555543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.81  E-value=0.0071  Score=45.16  Aligned_cols=131  Identities=11%  Similarity=0.028  Sum_probs=94.4

Q ss_pred             CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCc---HHHH
Q 043124          138 VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-FQPN---AVIW  213 (331)
Q Consensus       138 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~---~~~~  213 (331)
                      ..|+...-..|..++...|+..+|...|.+.. ..-+.-|....-.+.++....+++..|...++.+. .+|+   +.+.
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qal-sG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQAL-SGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHh-ccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            35777777778888888999999999998887 43345567777778888888899998888888643 2221   2234


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          214 GALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       214 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      ..+.+.+...|.+..|+..|+.+...-|+ +..-......+.++|+.+++..-+..+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            45667788889999999999888887776 444345667778888777766544444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.80  E-value=0.0022  Score=51.59  Aligned_cols=101  Identities=19%  Similarity=0.134  Sum_probs=83.6

Q ss_pred             CCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHh---hcCCHHHHHHHHHHHHhcCCCCcchHHH
Q 043124          175 TPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQ-PNAVIWGALLGGCK---LHRNLEIAHIAVNELMILEPNNSGYCTL  249 (331)
Q Consensus       175 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-p~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~p~~~~~~~~  249 (331)
                      +-|...|-.|...|...|+++.|..-|.+. .+. ++...+..+..++.   ....-.++..++++++..+|++......
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            557889999999999999999999999863 233 35666666666633   2334678899999999999999999999


Q ss_pred             HHHHHHhcCCchHHHHHHHHHHhcCC
Q 043124          250 LLNMYAEVSRWAEVTKIRVAMKELGI  275 (331)
Q Consensus       250 l~~~~~~~g~~~~a~~~~~~m~~~~~  275 (331)
                      |...+...|++.+|...|+.|.+...
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            99999999999999999999997643

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.78  E-value=0.00065  Score=58.37  Aligned_cols=120  Identities=14%  Similarity=0.097  Sum_probs=97.4

Q ss_pred             CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh--CCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC----CChhh
Q 043124           36 GISPDQVTMATVLSACAHLGALDLGREIHLYVMQI--GFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE----KNLFC  109 (331)
Q Consensus        36 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~  109 (331)
                      +.+.+......+++.+....+++.+..++-.....  ....-..+.+++++.|.+.|..+++++++..=..    +|..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            34567778888888888888889898888777654  2223355667999999999999999999887654    68899


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA  155 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  155 (331)
                      +|.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999998887777778877777766655

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 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.77  E-value=0.0037  Score=50.20  Aligned_cols=173  Identities=13%  Similarity=0.064  Sum_probs=98.6

Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCCCCh---h---hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc-
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLREKNL---F---CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH-  154 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~~~~---~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-  154 (331)
                      ....+...|++++|.+.|+.+....+   .   ..-.++.++.+.+++++|...+++..+....-...-+...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            34445566777777777777764211   1   2234566777778888888888877766322122223223333221 


Q ss_pred             -cC---------------c---HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHH
Q 043124          155 -AG---------------L---VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGA  215 (331)
Q Consensus       155 -~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~  215 (331)
                       .+               |   ...|+..|+.+.                ..|=.+.-..+|...+..+....-... ..
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li----------------~~yP~S~ya~~A~~rl~~l~~~la~~e-~~  180 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV----------------RGYPNSQYTTDATKRLVFLKDRLAKYE-LS  180 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHH----------------HHCcCChhHHHHHHHHHHHHHHHHHHH-HH
Confidence             10               1   123334444444                222223334444443333221101111 13


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMILEPNNS---GYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +.+-|.+.|.+..|..-++.+++.-|+..   .+...++.+|...|..++|..+...+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            45558889999999999999999666644   445567899999999999998877654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.76  E-value=0.00019  Score=44.52  Aligned_cols=61  Identities=20%  Similarity=0.251  Sum_probs=44.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          184 MVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       184 l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      +...+...|++++|...|++. ...| +...+..+..++...|++++|...++++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            455677888888888888863 3445 466777777778888888888888888888888753

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.72  E-value=0.0069  Score=52.60  Aligned_cols=205  Identities=12%  Similarity=0.081  Sum_probs=138.2

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC---CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHH
Q 043124           20 KQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG---ALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSL   96 (331)
Q Consensus        20 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~   96 (331)
                      ...+++..+++.....-..-+..+|..+...--..-   ..+....++++++......-.-+|..+++.-.+..-+..|.
T Consensus       307 ~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR  386 (656)
T KOG1914|consen  307 SLTDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAAR  386 (656)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHH
Confidence            346777777777665434446666665554322222   35667777777766533333456778888888888899999


Q ss_pred             HHHhhcCCC-----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc
Q 043124           97 LVFFKLREK-----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG  171 (331)
Q Consensus        97 ~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  171 (331)
                      .+|.+..+.     ++.++++++..+| +++.+-|.++|+--.+. +.-++.-....+..+...|+-..|..+|++....
T Consensus       387 ~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  387 KIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS  464 (656)
T ss_pred             HHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc
Confidence            999888752     5667788887776 47888899999876554 3344455556778888889999999999999844


Q ss_pred             CCCCCc--HhHHHHHHHHHHHcCCHHHHHHHHHhC----C--CCCcHHHHHHHHHHHhhcCCHH
Q 043124          172 YSITPE--VEHYGCMVDLLSKAGLLEDALELIRSS----K--FQPNAVIWGALLGGCKLHRNLE  227 (331)
Q Consensus       172 ~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~----~--~~p~~~~~~~l~~~~~~~~~~~  227 (331)
                       ++.++  ...|..++..-..-|++..+.++-+++    +  ..+....-..++..|.-.+...
T Consensus       465 -~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  465 -VLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             -cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence             56655  678999999888999999888876542    1  2222233344555555555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.72  E-value=0.007  Score=51.10  Aligned_cols=164  Identities=16%  Similarity=0.044  Sum_probs=107.9

Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-------ChhhHHHHHHHHHh---CCCHHHHHHHHHHHHHcCCCCcHHHH
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLREK-------NLFCWNSIIEGLAV---HGFAHEALAMFDRMIYENVEPNGVTF  145 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~  145 (331)
                      ..+...++-.|....+++...++++.+...       ....-...+-++.+   .|+.++|++++..+......+++.+|
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            334445666799999999999999998764       22333445566777   89999999999996666667888888


Q ss_pred             HHHHHHHhc---------cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC-HHH---HHHHH---H----hCC
Q 043124          146 ISVLSACTH---------AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL-LED---ALELI---R----SSK  205 (331)
Q Consensus       146 ~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~---a~~~~---~----~~~  205 (331)
                      ..+.+.|-.         ....++|+..|.+.-   .+.|+..+--.++..+...|. ++.   ..++-   .    +-+
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            887776532         234678888887755   334553332233333333333 221   12221   1    111


Q ss_pred             ---CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          206 ---FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       206 ---~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                         -..+-..+.+++.+++-.|+.++|.+..+++.+..|.
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence               2345566778888888899999999999999887766

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.68  E-value=0.00065  Score=51.99  Aligned_cols=89  Identities=12%  Similarity=0.140  Sum_probs=55.6

Q ss_pred             CCChhhHHHHHHHHHh-----CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc----------------CcHHHHH
Q 043124          104 EKNLFCWNSIIEGLAV-----HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA----------------GLVEEGR  162 (331)
Q Consensus       104 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----------------~~~~~a~  162 (331)
                      .++-.+|..++..+.+     .|..+=....+..|.+-|+.-|..+|+.|++.+=+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            3455555555555543     355666777777777788888888888877765432                2334566


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGL  193 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  193 (331)
                      +++++|. .+|+-||..++..++..+.+.+.
T Consensus       124 ~lL~qME-~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQME-NNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHH-HcCCCCcHHHHHHHHHHhccccH
Confidence            6666666 56666666666666666655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.64  E-value=0.022  Score=45.79  Aligned_cols=176  Identities=11%  Similarity=0.027  Sum_probs=96.4

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHH---HHHHHHHHhhCCHHHHHHHHhhcCCCC----hhhHHH
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIG---SALVDMYAKCGSLDRSLLVFFKLREKN----LFCWNS  112 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~  112 (331)
                      +...+-.....+...|+++.|.+.|+.+...-.. +....   -.++.++.+.+++++|...|++..+..    ...|-.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            3333334445566789999999999999886422 23332   356778889999999999998886421    122322


Q ss_pred             HHHHHH--hC---------------CC---HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC
Q 043124          113 IIEGLA--VH---------------GF---AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGY  172 (331)
Q Consensus       113 li~~~~--~~---------------~~---~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  172 (331)
                      .+.+.+  ..               .+   ..+|++.|+++++.  -|+.             .-..+|...+..+....
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~l  174 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDRL  174 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHHH
Confidence            233222  11               12   23455556665554  1222             22333433333333110


Q ss_pred             CCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC----C-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 043124          173 SITPEVEHYGCMVDLLSKAGLLEDALELIRSS----K-FQPNAVIWGALLGGCKLHRNLEIAHIAVNEL  236 (331)
Q Consensus       173 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  236 (331)
                           ...--.+.+.|.+.|.+..|..-++.+    + ..........++.+|...|..++|......+
T Consensus       175 -----a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        175 -----AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             -----HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence                 111123556677777777776666543    1 1223445556667777777777777665543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.64  E-value=0.0037  Score=43.88  Aligned_cols=109  Identities=12%  Similarity=0.071  Sum_probs=66.8

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc--HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHH
Q 043124          111 NSIIEGLAVHGFAHEALAMFDRMIYENVEPN--GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDL  187 (331)
Q Consensus       111 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~  187 (331)
                      ..+..++-..|+.++|+.+|++..+.|....  ...+..+...+...|+.++|..+|+.....+.-.+ +......+..+
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHH
Confidence            3455667778888888888888888775543  33455667777888888888888888774321100 22222334456


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHH
Q 043124          188 LSKAGLLEDALELIRSSKFQPNAVIWGALLGGC  220 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~  220 (331)
                      +...|+.++|+..+-..- .++...|..-|..|
T Consensus        85 L~~~gr~~eAl~~~l~~l-a~~~~~y~ra~~~y  116 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEAL-AETLPRYRRAIRFY  116 (120)
T ss_pred             HHHCCCHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence            677788888877765421 23333444444444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.56  E-value=0.041  Score=47.02  Aligned_cols=61  Identities=15%  Similarity=0.031  Sum_probs=51.4

Q ss_pred             HHHHHHHHHH--HhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          210 AVIWGALLGG--CKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       210 ~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ...-|.|..|  +..+|++.++.-+-.-+.++.| ++.+|..++-++....++++|+.++..+.
T Consensus       460 ~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  460 EEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            3455666666  6688999999988888888999 58999999999999999999999998864

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.55  E-value=0.00049  Score=43.19  Aligned_cols=65  Identities=15%  Similarity=0.226  Sum_probs=41.1

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC-CchHHHHHHHHHHHh
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG-ALDLGREIHLYVMQI   70 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~   70 (331)
                      +...|..+...+...|++++|+..|++..+.. +.+...|..+..++...| ++++|++.+++.++.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            34556666666667777777777776666653 234556666666666666 566666666666554

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.54  E-value=0.025  Score=51.18  Aligned_cols=250  Identities=12%  Similarity=0.058  Sum_probs=148.8

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC----CCHhhHHHHHHHHHccCCchHHHHHHHHHHHhC---------
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGIS----PDQVTMATVLSACAHLGALDLGREIHLYVMQIG---------   71 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------   71 (331)
                      ...+|..+.+.--..|+++.|..+++.=...+..    .+..-+...+.-+..+|+.+....++-.+...-         
T Consensus       506 ~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l  585 (829)
T KOG2280|consen  506 PGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTL  585 (829)
T ss_pred             CceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHH
Confidence            3456788888888889999998877643322210    122235556667778888888888776665431         


Q ss_pred             --CCCchhHHHHHHH--------HHHhhCCHHHHHHHHh--hcC-----CCChhhHHHHHHHHHhCCCHHH---------
Q 043124           72 --FDIDVYIGSALVD--------MYAKCGSLDRSLLVFF--KLR-----EKNLFCWNSIIEGLAVHGFAHE---------  125 (331)
Q Consensus        72 --~~~~~~~~~~l~~--------~~~~~g~~~~a~~~~~--~~~-----~~~~~~~~~li~~~~~~~~~~~---------  125 (331)
                        .+.....|.-+++        .+.+.++..++...|.  ...     +.-..........+.+.....-         
T Consensus       586 ~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~  665 (829)
T KOG2280|consen  586 RNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQM  665 (829)
T ss_pred             HhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence              1112222322222        0111122222222111  100     0111122233334444333221         


Q ss_pred             -HHHHHHHHHH-cCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          126 -ALAMFDRMIY-ENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       126 -a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                       -+.+.+.+.. .|.....-+.+--+.-+...|+..+|.++-.+.+     -||-..|-.=+.+++..+++++-+++-++
T Consensus       666 kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAks  740 (829)
T KOG2280|consen  666 KLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKS  740 (829)
T ss_pred             HHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhc
Confidence             1122222221 1333444455556667788899999999888887     68888888888999999999998888776


Q ss_pred             CCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          204 SKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       204 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      ..   .+.-|..+..+|.+.|+.++|.+++-+.-.        +.....+|.+.|++.+|.++--+-
T Consensus       741 kk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A~~~  796 (829)
T KOG2280|consen  741 KK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLAAEH  796 (829)
T ss_pred             cC---CCCCchhHHHHHHhcccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHHHHh
Confidence            64   245677789999999999999988755421        125788999999999998776543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.50  E-value=0.0013  Score=53.20  Aligned_cols=93  Identities=11%  Similarity=0.000  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcH----HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC---cchHHHHH
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS-KFQPNA----VIWGALLGGCKLHRNLEIAHIAVNELMILEPNN---SGYCTLLL  251 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~  251 (331)
                      .|..-+..+.+.|++++|+..|+.. ...|+.    ..+..+..+|...|+++.|...|+.++...|++   +..+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            3444444445556777777666653 233432    355566666777777777777777777655553   33344456


Q ss_pred             HHHHhcCCchHHHHHHHHHHh
Q 043124          252 NMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       252 ~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .++...|++++|..+++++.+
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            666677777777777777664

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.50  E-value=0.0048  Score=48.66  Aligned_cols=140  Identities=10%  Similarity=0.026  Sum_probs=88.9

Q ss_pred             hhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhh
Q 043124           22 FREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFK  101 (331)
Q Consensus        22 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  101 (331)
                      .+..+.+|++-..       ...+.+++.+...|.+.-....+.+.++...+.++.....|++.-.+.|+.+.|...|++
T Consensus       165 ~ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~  237 (366)
T KOG2796|consen  165 EESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQD  237 (366)
T ss_pred             hhhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            3555555555332       234455666666677777777777777766566677777777777777888887777775


Q ss_pred             cCCC----Ch-----hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          102 LREK----NL-----FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       102 ~~~~----~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ..+.    |.     .+.......|.-.+++..|...|.+....+ +.|....|.-.-+..-.|+...|.+..+.|.
T Consensus       238 vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~  313 (366)
T KOG2796|consen  238 VEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMV  313 (366)
T ss_pred             HHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHh
Confidence            5431    22     222333444556677777777777776654 3455555555555556677777887777777

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.49  E-value=0.03  Score=43.68  Aligned_cols=184  Identities=12%  Similarity=0.049  Sum_probs=96.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGI--SPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +...+-.....+...|++.+|...|+.+.....  +--....-.++.++.+.|+++.|...++.+++.-......-+...
T Consensus         4 ~~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y   83 (203)
T PF13525_consen    4 TAEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALY   83 (203)
T ss_dssp             -HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHH
Confidence            333444456667788899999999999887522  112234556777888889999999999988876322222222222


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCC-------hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKN-------LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA  155 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  155 (331)
                      +.+.+.-.......     ...+|       ...+..++.-|=.+.-..+|...+..+.+.   .-..-+ .+...|.+.
T Consensus        84 ~~g~~~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~e~-~ia~~Y~~~  154 (203)
T PF13525_consen   84 MLGLSYYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEHEL-YIARFYYKR  154 (203)
T ss_dssp             HHHHHHHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHHHH-HHHHHHHCT
T ss_pred             HHHHHHHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHHHH-HHHHHHHHc
Confidence            22222111111111     11111       123445555555555566666655555432   111112 255667778


Q ss_pred             CcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHH
Q 043124          156 GLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       156 ~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  197 (331)
                      |.+..|..-++.+.+.+.-.+. ......++.+|.+.|..+.+
T Consensus       155 ~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             T-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            8888888888877755321111 23445566677777766644

>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=97.48  E-value=0.00065  Score=49.97  Aligned_cols=67  Identities=24%  Similarity=0.257  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH-----hcCCCCC
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK-----ELGIEKR  278 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~  278 (331)
                      ....++..+...|+++.|.+++++++..+|.+...|..++.+|...|+...|.++|+++.     +.|+.|.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps  135 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPS  135 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcC
Confidence            455667778889999999999999999999999999999999999999999999999873     4577766

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.48  E-value=0.00085  Score=41.92  Aligned_cols=51  Identities=14%  Similarity=0.192  Sum_probs=31.2

Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ...|++++|++.|+++.+.. |-+......+..+|.+.|++++|..+++.+.
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34566666666666666653 3345555556666666666666666666666

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.47  E-value=0.022  Score=45.03  Aligned_cols=135  Identities=11%  Similarity=-0.031  Sum_probs=97.4

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHH----
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCM----  184 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l----  184 (331)
                      +.+.++..+.-.|.+.-....+++.++.+.+-++.....+.+.-.+.||.+.|...|+++.+..+ ..+..+.+.+    
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHhh
Confidence            55667777778888888899999998877666777788888888899999999999997774333 2333333333    


Q ss_pred             -HHHHHHcCCHHHHHHHHHhCCC-C-CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          185 -VDLLSKAGLLEDALELIRSSKF-Q-PNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       185 -~~~~~~~~~~~~a~~~~~~~~~-~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                       ...|.-++++..|...+.++.. . -|+...|.-.-+..-.|+...|.+.++.++...|...
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence             3345667888888888877642 2 2444455555555667899999999999999888743

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.42  E-value=0.11  Score=48.30  Aligned_cols=197  Identities=14%  Similarity=0.096  Sum_probs=129.5

Q ss_pred             CchhhHHHHHHH--HHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 043124            4 RDIISWTTMITC--YSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA   81 (331)
Q Consensus         4 p~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   81 (331)
                      ||.. |..++.+  ..+.|+.++|..+++.....+.. |..|...+-.+|...+..++|..+|+.+....  |+......
T Consensus        40 Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~--P~eell~~  115 (932)
T KOG2053|consen   40 PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQKY--PSEELLYH  115 (932)
T ss_pred             CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhC--CcHHHHHH
Confidence            4444 4444544  45789999999999888777644 88899999999999999999999999988863  56777778


Q ss_pred             HHHHHHhhCCHHH----HHHHHhhcCCCChhhHHHHHHHHHhCCC---------HHHHHHHHHHHHHcC-CCCcHHHHHH
Q 043124           82 LVDMYAKCGSLDR----SLLVFFKLREKNLFCWNSIIEGLAVHGF---------AHEALAMFDRMIYEN-VEPNGVTFIS  147 (331)
Q Consensus        82 l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~~-~~p~~~~~~~  147 (331)
                      +..+|.+.+.+.+    |+++++...+.--..|+.+--.+.....         ..-|.+.++.+.+.+ ..-+..-...
T Consensus       116 lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~L  195 (932)
T KOG2053|consen  116 LFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIIL  195 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHH
Confidence            8888998887765    5566665554433444433222222111         234666677776654 2222222223


Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                      -...+...|.+++|..++..-....-...+...-+.-+..+...+++.+..++-.++
T Consensus       196 yl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  196 YLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            334456788899999999443312222334445556677788888988887776653

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.40  E-value=0.059  Score=45.09  Aligned_cols=109  Identities=15%  Similarity=0.022  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      +.+..|.-+...|+...|.++-.+.   . -|+...|...+.+++..++|++-.++-.. +      -++.-|..++.+|
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s-k------KsPIGyepFv~~~  247 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS-K------KSPIGYEPFVEAC  247 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C------CCCCChHHHHHHH
Confidence            4555567777888888888876665   2 47888888888999999999877765432 1      2346688888888


Q ss_pred             HHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 043124          189 SKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNE  235 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  235 (331)
                      .+.|+..+|..++.++.  +     ..-+..|.+.|++.+|.+..-+
T Consensus       248 ~~~~~~~eA~~yI~k~~--~-----~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKIP--D-----EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHCCCHHHHHHHHHhCC--h-----HHHHHHHHHCCCHHHHHHHHHH
Confidence            89999999988888743  1     3345667788888888766444

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

>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=97.38  E-value=0.00041  Score=44.77  Aligned_cols=61  Identities=11%  Similarity=0.040  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHh----cC---CCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMI----LE---PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      .+++.+...|...|++++|+..+++++.    .+   |....++..++.+|...|++++|.+++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666667777777777777777765    11   1223456667777777777777777777654

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.36  E-value=0.0038  Score=45.87  Aligned_cols=88  Identities=15%  Similarity=0.051  Sum_probs=66.0

Q ss_pred             HHHHHHcCCHHHHHHHHHhCC-CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchH
Q 043124          185 VDLLSKAGLLEDALELIRSSK-FQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAE  262 (331)
Q Consensus       185 ~~~~~~~~~~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  262 (331)
                      ..-+-..|++++|..+|+-+- ..| +..-+..|..++-..+++++|...+..+..++++++..+.....+|...|+.+.
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~~~~~  123 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHH
Confidence            344567888888888887532 222 444556666667778888888888888888888888887888888888888888


Q ss_pred             HHHHHHHHHh
Q 043124          263 VTKIRVAMKE  272 (331)
Q Consensus       263 a~~~~~~m~~  272 (331)
                      |...|+...+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            8888887765

>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=97.34  E-value=0.0039  Score=44.18  Aligned_cols=53  Identities=11%  Similarity=0.135  Sum_probs=43.9

Q ss_pred             CCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHH
Q 043124          137 NVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLS  189 (331)
Q Consensus       137 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  189 (331)
                      ...|+..+..+++.+|+..|++..|.++.+...+.++++.+..+|..|+.-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            35688888888888888889999999999888888888888888888887543

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=97.32  E-value=0.038  Score=43.13  Aligned_cols=49  Identities=10%  Similarity=0.011  Sum_probs=36.0

Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHhcCCCCcch---HHHHHHHHHhcCCchHHH
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMILEPNNSGY---CTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~  264 (331)
                      +...|.+.|.+..|...++.+++.-|++...   ...++.+|.+.|..+.+.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            4555888999999999999999988875533   456788888888877543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.31  E-value=0.0015  Score=55.88  Aligned_cols=97  Identities=14%  Similarity=0.057  Sum_probs=59.7

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcH----HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPNA----VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLL  251 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  251 (331)
                      +...++.+..+|...|++++|+..|++ +.+.|+.    .+|..+..+|...|+.++|...++++++..+.   .|..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~---~f~~i~  150 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL---KFSTIL  150 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch---hHHHHH
Confidence            356677777777777777777777776 4566663    24677777777777777777777777775321   122111


Q ss_pred             H--HHHhcCCchHHHHHHHHHHhcCCC
Q 043124          252 N--MYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       252 ~--~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      .  .+....+.++..++++.....|.+
T Consensus       151 ~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        151 NDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             hCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            1  111223344666677777766654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.29  E-value=0.00019  Score=37.78  Aligned_cols=32  Identities=25%  Similarity=0.391  Sum_probs=29.9

Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhcCCchHHH
Q 043124          233 VNELMILEPNNSGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       233 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      ++++++.+|+++..|..|..+|...|++++|+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            67889999999999999999999999999986

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.0042  Score=52.02  Aligned_cols=60  Identities=12%  Similarity=-0.041  Sum_probs=47.5

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +++.|..++.+.+++..|++...+.++.+|+|......-..++...|+++.|+..|+++.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~  318 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKAL  318 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            456666677788888888888888888888888777777888888888888888888876

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.22  E-value=0.00084  Score=37.77  Aligned_cols=41  Identities=17%  Similarity=0.237  Sum_probs=35.6

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      ++..+...|...|++++|.++++++++..|+++..+..|..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            56778888999999999999999999999999888776653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.19  E-value=0.073  Score=41.78  Aligned_cols=201  Identities=10%  Similarity=0.047  Sum_probs=110.6

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCC--hhhHHHHHHHHHhC
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKN--LFCWNSIIEGLAVH  120 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~li~~~~~~  120 (331)
                      .|.....+|....++++|...+.+..+. ...+...|++       ...++.|--+.+++.+-+  +..|+.-...|...
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-------AKayEqaamLake~~klsEvvdl~eKAs~lY~E~  104 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-------AKAYEQAAMLAKELSKLSEVVDLYEKASELYVEC  104 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-------HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            4555556667777777777766665543 2323333322       122344444444444321  12344455566666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc----CCCCCcHhHHHHHHHHHHHcCCHHH
Q 043124          121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG----YSITPEVEHYGCMVDLLSKAGLLED  196 (331)
Q Consensus       121 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~  196 (331)
                      |.++.|-..+++.-+.                ....+++.|+++|++...-    .....-...+..+...+++...+.+
T Consensus       105 GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~E  168 (308)
T KOG1585|consen  105 GSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTE  168 (308)
T ss_pred             CCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhH
Confidence            6666555555543221                2233444555555443211    0111123345555566778888888


Q ss_pred             HHHHHHhCC-------CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHh----cCCCCcchHHHHHHHHHhcCCchHHH
Q 043124          197 ALELIRSSK-------FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMI----LEPNNSGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       197 a~~~~~~~~-------~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~p~~~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      |-..+.+.+       ..|+ -..|...|-.+....|+..|++.++.-..    .+|.+......|+.+| ..|+.+++.
T Consensus       169 aa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~  247 (308)
T KOG1585|consen  169 AATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIK  247 (308)
T ss_pred             HHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHH
Confidence            766665432       1222 23345555556677899999999988665    4577777778888887 567778776


Q ss_pred             HHHH
Q 043124          265 KIRV  268 (331)
Q Consensus       265 ~~~~  268 (331)
                      +++.
T Consensus       248 kvl~  251 (308)
T KOG1585|consen  248 KVLS  251 (308)
T ss_pred             HHHc
Confidence            6654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.18  E-value=0.0081  Score=48.70  Aligned_cols=94  Identities=11%  Similarity=-0.020  Sum_probs=60.7

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhhCCHHHHHHHHhhcCC--C----ChhhHHHHH
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGFDID--VYIGSALVDMYAKCGSLDRSLLVFFKLRE--K----NLFCWNSII  114 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~----~~~~~~~li  114 (331)
                      .|........+.|++++|...|+.+++......  ..++-.+..+|...|++++|...|+.+.+  |    ...++..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            444444444556777777777777777632110  23555677777777777777777777753  2    234555566


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHc
Q 043124          115 EGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      ..+...|+.++|..+|+++.+.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6777778888888888877765

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.13  E-value=0.086  Score=47.65  Aligned_cols=90  Identities=14%  Similarity=0.190  Sum_probs=48.0

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC------------CCCc
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE------------PNNS  244 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------p~~~  244 (331)
                      +....-.+.+++.+.|.-++|.+.+-+.+ .|.     ..+..|...+++.+|.++.++..--.            -.+.
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s-~pk-----aAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~  924 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRS-LPK-----AAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADA  924 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhcc-CcH-----HHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhc
Confidence            33445556677777777777777665544 222     23445556666666655554431100            0001


Q ss_pred             chHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          245 GYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       245 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .. ..-|..+.++|++=+|.+++.+|.++
T Consensus       925 ~~-~eaIe~~Rka~~~~daarll~qmae~  952 (1189)
T KOG2041|consen  925 NH-MEAIEKDRKAGRHLDAARLLSQMAER  952 (1189)
T ss_pred             ch-HHHHHHhhhcccchhHHHHHHHHhHH
Confidence            11 22455666677776777776666544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.10  E-value=0.17  Score=45.47  Aligned_cols=92  Identities=10%  Similarity=-0.052  Sum_probs=48.4

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch----------HH
Q 043124          179 EHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY----------CT  248 (331)
Q Consensus       179 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~----------~~  248 (331)
                      .+...+...+.+...+.-|-++|.+++-.      -.++......+++.+|..+.++.-+..|+-...          |.
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFe  821 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFE  821 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHH
Confidence            33444444444555555566666655511      123344455566666666655554444432211          12


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          249 LLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       249 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      .--.+|.++|+-.+|.++++++-...+.
T Consensus       822 EAqkAfhkAGr~~EA~~vLeQLtnnav~  849 (1081)
T KOG1538|consen  822 EAQKAFHKAGRQREAVQVLEQLTNNAVA  849 (1081)
T ss_pred             HHHHHHHHhcchHHHHHHHHHhhhhhhh
Confidence            2334667778888888888877655443

>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=97.05  E-value=0.0091  Score=43.84  Aligned_cols=69  Identities=12%  Similarity=0.092  Sum_probs=35.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHH-----HhCCCCchhH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVM-----QIGFDIDVYI   78 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~   78 (331)
                      ...++..+...|++++|..+.+.+.... +-|...|..+|.++...|+...|.++|+.+.     +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3444455555666666666666666553 3355566666666666666666666665543     2355555443

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=97.04  E-value=0.036  Score=44.83  Aligned_cols=110  Identities=11%  Similarity=0.068  Sum_probs=69.2

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc---CcHHHHHHHHHhhhhcCCCCCcHhHHH
Q 043124          106 NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA---GLVEEGRRRFLSMTCGYSITPEVEHYG  182 (331)
Q Consensus       106 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~  182 (331)
                      |...|-.|..+|...|+.+.|...|.+..+.. +++...+..+..++..+   ....++..+|+++.+..  +-++....
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D--~~~iral~  231 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD--PANIRALS  231 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC--CccHHHHH
Confidence            66677788888888888888888887777652 45555555555554433   23456777777777322  33455666


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCC-CCCcHHHHHHHHH
Q 043124          183 CMVDLLSKAGLLEDALELIRSSK-FQPNAVIWGALLG  218 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~~~~l~~  218 (331)
                      .|...+...|++.+|...++.|- .-|....+..+|.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie  268 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            66677777888888877777642 3333333444443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.97  E-value=0.002  Score=41.47  Aligned_cols=63  Identities=19%  Similarity=0.305  Sum_probs=36.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHC----CC-CCC-HhhHHHHHHHHHccCCchHHHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNS----GI-SPD-QVTMATVLSACAHLGALDLGREIHLYVMQ   69 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   69 (331)
                      .+|+.+...|...|++++|++.|++..+.    |- .|+ ..++..+..++...|++++|++.+++..+
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            34666666677777777777766666532    11 111 33455666666666666666666665543

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.96  E-value=0.12  Score=45.99  Aligned_cols=81  Identities=15%  Similarity=0.092  Sum_probs=33.8

Q ss_pred             CHHHHHHHHhhcCC--CChhhHHH-HHHHHHhCCCHHHHHHHHHHHHHcC---CCCcHHHHHHHHHHHhccCcHHHHHHH
Q 043124           91 SLDRSLLVFFKLRE--KNLFCWNS-IIEGLAVHGFAHEALAMFDRMIYEN---VEPNGVTFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        91 ~~~~a~~~~~~~~~--~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      ..+.|.++++.+.+  |+...|.. -.+.+...|+.++|++.|++.....   .+.....+--+...+....+|++|...
T Consensus       248 ~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~  327 (468)
T PF10300_consen  248 PLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEY  327 (468)
T ss_pred             CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHH
Confidence            44455555555544  33322221 2233444455555555555433210   011112222233444555555555555


Q ss_pred             HHhhhhc
Q 043124          165 FLSMTCG  171 (331)
Q Consensus       165 ~~~~~~~  171 (331)
                      |..+.+.
T Consensus       328 f~~L~~~  334 (468)
T PF10300_consen  328 FLRLLKE  334 (468)
T ss_pred             HHHHHhc
Confidence            5555533

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.96  E-value=0.19  Score=42.41  Aligned_cols=209  Identities=14%  Similarity=0.083  Sum_probs=101.5

Q ss_pred             ccCCchHHHHHHHHHHHhCCCCchhH--HHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHH
Q 043124           53 HLGALDLGREIHLYVMQIGFDIDVYI--GSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEAL  127 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~  127 (331)
                      -.|+.+.|.+-|+.|...   |....  ...|.-.-.+.|..+.|...-++....   -...+...+...+..|+|+.|+
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHH
Confidence            346666666666666542   11111  111222223445555555555544322   2235666677777777777777


Q ss_pred             HHHHHHHHcC-CCCcHHH--HHHHHHHHh---ccCcHHHHHHHHHhhhhcCCCCCcHhH-HHHHHHHHHHcCCHHHHHHH
Q 043124          128 AMFDRMIYEN-VEPNGVT--FISVLSACT---HAGLVEEGRRRFLSMTCGYSITPEVEH-YGCMVDLLSKAGLLEDALEL  200 (331)
Q Consensus       128 ~~~~~m~~~~-~~p~~~~--~~~ll~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~  200 (331)
                      ++.+.-++.. +.++..-  -..|+.+-.   -..+...|...-.+..   .+.|+..- -..-..++.+.|+..++-.+
T Consensus       209 kLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~---KL~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         209 KLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEAN---KLAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHh---hcCCccchHHHHHHHHHHhccchhhhhhH
Confidence            7776655432 3333221  112222111   1123334443333322   33444221 11224566777777777777


Q ss_pred             HHhC-CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHH---HhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          201 IRSS-KFQPNAVIWGALLGGCKLHRNLEIAHIAVNEL---MILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       201 ~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++.+ +..|.+..+...+  ..+.|+  .+..-++++   ..+.|++......+.++-...|++..|..--+...
T Consensus       286 lE~aWK~ePHP~ia~lY~--~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~  356 (531)
T COG3898         286 LETAWKAEPHPDIALLYV--RARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA  356 (531)
T ss_pred             HHHHHhcCCChHHHHHHH--HhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh
Confidence            7653 3344444332221  223333  333333333   33667777776667777777777776665555443

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.94  E-value=0.0087  Score=47.75  Aligned_cols=89  Identities=16%  Similarity=0.156  Sum_probs=74.1

Q ss_pred             CCchhhHHHHHHHHHhC-----CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC----------------CchHHH
Q 043124            3 ARDIISWTTMITCYSQN-----KQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG----------------ALDLGR   61 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------------~~~~a~   61 (331)
                      ++|..+|-+.+..+...     +..+-.-..++.|.+.|+.-|..+|+.|++.+-+..                .-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            46778888888777654     566777778899999999999999999999875542                335678


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhhCC
Q 043124           62 EIHLYVMQIGFDIDVYIGSALVDMYAKCGS   91 (331)
Q Consensus        62 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~   91 (331)
                      .++++|...|+.||-.+-..|++++.+.+-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            999999999999999999999999988775

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.93  E-value=0.0058  Score=38.67  Aligned_cols=54  Identities=13%  Similarity=0.067  Sum_probs=31.2

Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          115 EGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ..|.+.+++++|.++++.+...+ |.+...+......+...|++++|...|+...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            34555666666666666666553 3344455555555666666666666666655

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.87  E-value=0.15  Score=43.35  Aligned_cols=166  Identities=12%  Similarity=0.028  Sum_probs=102.5

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcC---CCCcHHHHHHHHHHHhc---cCcHHHHHHHHHhhhhcCCCCCcHhHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYEN---VEPNGVTFISVLSACTH---AGLVEEGRRRFLSMTCGYSITPEVEHY  181 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  181 (331)
                      .+...++-+|....+|+...++.+.+...-   +.-+...-....-++.+   .|+.++|.+++..+. ...-.+++.+|
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l-~~~~~~~~d~~  220 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVL-ESDENPDPDTL  220 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHH-hccCCCChHHH
Confidence            344456667999999999999999998751   11122222233445666   899999999999955 23446777788


Q ss_pred             HHHHHHHHH---------cCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHhhcCC-HH---HHHHHH---HHHHh----cC
Q 043124          182 GCMVDLLSK---------AGLLEDALELIRSS-KFQPNAVIWGALLGGCKLHRN-LE---IAHIAV---NELMI----LE  240 (331)
Q Consensus       182 ~~l~~~~~~---------~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~~~~----~~  240 (331)
                      ..+...|-.         ....++|++.+.+. .++||..+--.++..+...|. .+   +..++-   ..+..    ..
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            887776632         22467788888762 345554332222222222332 22   222222   11111    11


Q ss_pred             -CCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          241 -PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       241 -p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                       -.+...+..++.+..-.|++++|.+..++|....
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence             2334556789999999999999999999998663

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.21  Score=40.53  Aligned_cols=175  Identities=13%  Similarity=0.015  Sum_probs=114.3

Q ss_pred             HHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc
Q 043124           92 LDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG  171 (331)
Q Consensus        92 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  171 (331)
                      -+...++++++..+....-..-.......|++.+|...|....... +-+...-..+++++...|+.+.|..++..+-.+
T Consensus       119 esqlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~  197 (304)
T COG3118         119 ESQLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQ  197 (304)
T ss_pred             HHHHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCccc
Confidence            3445555666655433323333445677899999999999988764 334555667888999999999999999987732


Q ss_pred             CCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc--CCCCcchHH
Q 043124          172 YSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMIL--EPNNSGYCT  248 (331)
Q Consensus       172 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  248 (331)
                      .. .........-+..+.+.....+..++-.+..-.| |...-..+...+...|+.+.|.+.+-.+++.  .-.+...-.
T Consensus       198 ~~-~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk  276 (304)
T COG3118         198 AQ-DKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARK  276 (304)
T ss_pred             ch-hhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHH
Confidence            11 1111122223445555555555555555554556 5666677778889999999999888777773  344566677


Q ss_pred             HHHHHHHhcCCchHHHHHHH
Q 043124          249 LLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       249 ~l~~~~~~~g~~~~a~~~~~  268 (331)
                      .|+..+.-.|.-+.+...++
T Consensus       277 ~lle~f~~~g~~Dp~~~~~R  296 (304)
T COG3118         277 TLLELFEAFGPADPLVLAYR  296 (304)
T ss_pred             HHHHHHHhcCCCCHHHHHHH
Confidence            88888888886555444443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.78  E-value=0.22  Score=44.35  Aligned_cols=158  Identities=14%  Similarity=0.057  Sum_probs=109.0

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcC-CCCcH-----HHHHHHHHHHhc----cCcHHHHHHHHHhhhhcCCCCCcHhHHHH
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYEN-VEPNG-----VTFISVLSACTH----AGLVEEGRRRFLSMTCGYSITPEVEHYGC  183 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~-~~p~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  183 (331)
                      ++...=.|+-+.+++.+.+..+.+ +.-..     -.|...+..++.    ..+.+.|.+++..+.+.   -|+...|..
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lfl~  271 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALFLF  271 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHHHH
Confidence            334455789999999998876643 22211     223333333332    46788999999999944   466555543


Q ss_pred             H-HHHHHHcCCHHHHHHHHHhCC------CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHH-HHHHH
Q 043124          184 M-VDLLSKAGLLEDALELIRSSK------FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLL-LNMYA  255 (331)
Q Consensus       184 l-~~~~~~~~~~~~a~~~~~~~~------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l-~~~~~  255 (331)
                      . .+.+...|++++|++.|++..      -+.....+.-+...+....++++|.+.+.++.+....+..+|..+ +.++.
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~  351 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAACLL  351 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            3 455678999999999999632      122334555666678889999999999999999777766666544 55667


Q ss_pred             hcCCc-------hHHHHHHHHHHhcC
Q 043124          256 EVSRW-------AEVTKIRVAMKELG  274 (331)
Q Consensus       256 ~~g~~-------~~a~~~~~~m~~~~  274 (331)
                      ..|+.       ++|..++++.....
T Consensus       352 ~l~~~~~~~~~~~~a~~l~~~vp~l~  377 (468)
T PF10300_consen  352 MLGREEEAKEHKKEAEELFRKVPKLK  377 (468)
T ss_pred             hhccchhhhhhHHHHHHHHHHHHHHH
Confidence            78888       88999999886543

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.72  E-value=0.04  Score=47.44  Aligned_cols=63  Identities=3%  Similarity=-0.213  Sum_probs=38.4

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc-h---hHHHHHHHHHHhhCCHHHHHHHHhhcCC
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID-V---YIGSALVDMYAKCGSLDRSLLVFFKLRE  104 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~  104 (331)
                      +...++.+..+|...|++++|+..|++.++..  |+ .   .+|..+..+|...|+.++|++.+++..+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34456666666666666666666666666653  22 2   2366666666666666666666665544

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.028  Score=47.25  Aligned_cols=95  Identities=14%  Similarity=0.075  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHh-CCC-CCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 043124          179 EHYGCMVDLLSKAGLLEDALELIRS-SKF-QPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       179 ~~~~~l~~~~~~~~~~~~a~~~~~~-~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  256 (331)
                      .++..+.-++.+.+++.+|+...++ +.. ++|+.....=..++...|+++.|...|++++++.|+|-.+-..|+.+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            3567788889999999999998876 333 45677777778889999999999999999999999998888888888777


Q ss_pred             cCCchHH-HHHHHHHHhc
Q 043124          257 VSRWAEV-TKIRVAMKEL  273 (331)
Q Consensus       257 ~g~~~~a-~~~~~~m~~~  273 (331)
                      ...+.+. .++|..|-..
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            7666554 7788888643

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.70  E-value=0.12  Score=36.45  Aligned_cols=141  Identities=16%  Similarity=0.124  Sum_probs=84.8

Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      .-.|..++..++..+....   .+..-+|.+|.-....-+-+-..++++.+-+-+++              ...|+....
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDi--------------s~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDI--------------SKCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-G--------------GG-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------hhhcchHHH
Confidence            3457777777777776654   24444555555545555555555666555533322              234455555


Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCC
Q 043124          198 LELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEK  277 (331)
Q Consensus       198 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  277 (331)
                      ...+-.++  .+.......+.++...|+-+.-.++.+.+.+..-.++.+...+..+|.+.|+..++.+++++.-+.|++.
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~kE  153 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLKE  153 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchHH
Confidence            55555544  3444556677788899999999999999886444447777889999999999999999999999988753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.68  E-value=0.12  Score=44.30  Aligned_cols=125  Identities=14%  Similarity=0.116  Sum_probs=52.6

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhC-CCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC--CChhh-HHHHHHHHH
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIG-FDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE--KNLFC-WNSIIEGLA  118 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~-~~~li~~~~  118 (331)
                      .|...++.-.+..-++.|..+|-++.+.+ +.+++.++++++..++ .|+..-|..+|+--..  +|... -+..+..+.
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi  477 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLI  477 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            34444444444444445555554444444 3344444444444443 2344444444443221  22222 122333444


Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCc--HHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          119 VHGFAHEALAMFDRMIYENVEPN--GVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       119 ~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ..++-+.|..+|+..+.. +..+  ...|..+|..-..-|+...+..+=+++.
T Consensus       478 ~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~  529 (660)
T COG5107         478 RINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFR  529 (660)
T ss_pred             HhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHH
Confidence            444444555555433322 1111  2334444444444455544444444444

>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=96.64  E-value=0.11  Score=45.53  Aligned_cols=162  Identities=14%  Similarity=0.113  Sum_probs=104.0

Q ss_pred             HHHHhCCChhHHHHHHH--HHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC
Q 043124           14 TCYSQNKQFREALDAFN--EMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS   91 (331)
Q Consensus        14 ~~~~~~~~~~~a~~~~~--~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~   91 (331)
                      +...-.++++++.+..+  ++.. .+  .....+.+++-+.+.|..+.|+++..         |..   .-.....+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCC
Confidence            34455678888776664  2221 12  24457788888888898888888742         221   23456678899


Q ss_pred             HHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc
Q 043124           92 LDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG  171 (331)
Q Consensus        92 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  171 (331)
                      ++.|.++.++..  +...|..|.....+.|+++-|++.|++..+         |..|+-.|.-.|+.+.-.++.+.....
T Consensus       334 L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999988877665  566899999999999999999999988643         445666677788887777777666622


Q ss_pred             CCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 043124          172 YSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQP  208 (331)
Q Consensus       172 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p  208 (331)
                       |      -++.-..++.-.|+.++..+++.+.+..|
T Consensus       403 -~------~~n~af~~~~~lgd~~~cv~lL~~~~~~~  432 (443)
T PF04053_consen  403 -G------DINIAFQAALLLGDVEECVDLLIETGRLP  432 (443)
T ss_dssp             -T-------HHHHHHHHHHHT-HHHHHHHHHHTT-HH
T ss_pred             -c------CHHHHHHHHHHcCCHHHHHHHHHHcCCch
Confidence             2      24555666777788888888888877444

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.62  E-value=0.056  Score=44.90  Aligned_cols=222  Identities=14%  Similarity=0.014  Sum_probs=93.8

Q ss_pred             HhCCChhHHHHHHHHHHHCC--CCCCHhhHHHHHHHHHccCCchHHHHHHH-HH---HHhC-CCCchhHHHHHHHHHHhh
Q 043124           17 SQNKQFREALDAFNEMKNSG--ISPDQVTMATVLSACAHLGALDLGREIHL-YV---MQIG-FDIDVYIGSALVDMYAKC   89 (331)
Q Consensus        17 ~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~---~~~~-~~~~~~~~~~l~~~~~~~   89 (331)
                      ...++.++|+..+.+...+-  ..---.+|..+..+.+..|.+++++..-- +|   .+.. -..--..|..+.+++.+.
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666666666554431  01111344445555555555555443211 11   1110 000122333444444444


Q ss_pred             CCHHHHHHHHhhcCC-C-------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC-----CCCcHHHHHHHHHHHhccC
Q 043124           90 GSLDRSLLVFFKLRE-K-------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN-----VEPNGVTFISVLSACTHAG  156 (331)
Q Consensus        90 g~~~~a~~~~~~~~~-~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~p~~~~~~~ll~~~~~~~  156 (331)
                      -++.+++.+-..-.. |       .-...-++..++...+.++++++.|+...+.-     .......+..|...|....
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            444444443332211 1       11223334555555556666666666554321     1112234555556666666


Q ss_pred             cHHHHHHHHHhhhh---cCCCCCcHhHHHH-----HHHHHHHcCCHHHHHHHHHh-------CCCCCc-HHHHHHHHHHH
Q 043124          157 LVEEGRRRFLSMTC---GYSITPEVEHYGC-----MVDLLSKAGLLEDALELIRS-------SKFQPN-AVIWGALLGGC  220 (331)
Q Consensus       157 ~~~~a~~~~~~~~~---~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~-------~~~~p~-~~~~~~l~~~~  220 (331)
                      |+++|..+..+..+   ..++.--..-|..     +.-++...|....|.+..++       +|-+|. ......+...|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            66666555544331   1221111111221     22234445555555444443       222221 22233444445


Q ss_pred             hhcCCHHHHHHHHHHHHh
Q 043124          221 KLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~  238 (331)
                      ...|+.+.|+.-++.+..
T Consensus       257 R~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HhcccHhHHHHHHHHHHH
Confidence            566666666666655544

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.57  E-value=0.047  Score=38.74  Aligned_cols=82  Identities=9%  Similarity=0.042  Sum_probs=51.0

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHC---------------CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNS---------------GISPDQVTMATVLSACAHLGALDLGREIHLYVMQ   69 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   69 (331)
                      |..++.++|.++++.|+.+....+++..-.-               ...|+..+..+++.+|+..|++..|.++.+...+
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            4567788888888888888888777655211               1345556666666666666666666666665544


Q ss_pred             h-CCCCchhHHHHHHHHH
Q 043124           70 I-GFDIDVYIGSALVDMY   86 (331)
Q Consensus        70 ~-~~~~~~~~~~~l~~~~   86 (331)
                      . +++.+..+|..|+.-.
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HcCCCCCHHHHHHHHHHH
Confidence            3 4444555566555543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK15331 chaperone protein SicA; Provisional

Probab=96.56  E-value=0.037  Score=40.78  Aligned_cols=86  Identities=9%  Similarity=-0.032  Sum_probs=71.0

Q ss_pred             HHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhc---CCCChhhHHHHHHHHHhCCCHHH
Q 043124           49 SACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKL---REKNLFCWNSIIEGLAVHGFAHE  125 (331)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~  125 (331)
                      .-+...|++++|..+|.-+.-.++. +..-+..|..++-..+++++|...|...   ...|+.++.....++...|+.+.
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHH
Confidence            3445789999999999988876533 5666788889999999999999998743   34577788888999999999999


Q ss_pred             HHHHHHHHHH
Q 043124          126 ALAMFDRMIY  135 (331)
Q Consensus       126 a~~~~~~m~~  135 (331)
                      |...|+...+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999999887

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.55  E-value=0.0062  Score=34.17  Aligned_cols=28  Identities=11%  Similarity=0.058  Sum_probs=25.3

Q ss_pred             chHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          245 GYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       245 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ..+..+...|.+.|++++|.+++++..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3577899999999999999999999984

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.50  E-value=0.25  Score=38.21  Aligned_cols=163  Identities=12%  Similarity=0.040  Sum_probs=99.0

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          107 LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       107 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      +.+||-+.-.+...|+++.|.+.|+...+.+.. ...++..-.-++.-.|++.-|.+-+...-....-.|-...|--+. 
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~-y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~-  176 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN-  176 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCc-chHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH-
Confidence            468899999999999999999999999887532 233332222234456888888877776663332223222332222 


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC-------cchHHHHHHHHHhcCC
Q 043124          187 LLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN-------SGYCTLLLNMYAEVSR  259 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~  259 (331)
                        -..-++.+|..-+.+.-...|..-|...|..+.- |++. .+.+++++.....++       ..+|..|..-+...|+
T Consensus       177 --E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~  252 (297)
T COG4785         177 --EQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGD  252 (297)
T ss_pred             --HhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhcccc
Confidence              2345677776665543334555566555555322 2211 123444444422232       3456778888999999


Q ss_pred             chHHHHHHHHHHhcCC
Q 043124          260 WAEVTKIRVAMKELGI  275 (331)
Q Consensus       260 ~~~a~~~~~~m~~~~~  275 (331)
                      .++|..+|+-....++
T Consensus       253 ~~~A~~LfKLaiannV  268 (297)
T COG4785         253 LDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHhH
Confidence            9999999998776543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.41  E-value=0.3  Score=44.41  Aligned_cols=206  Identities=13%  Similarity=0.091  Sum_probs=112.5

Q ss_pred             CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh-CCCCchhHHHHHH-------HHHHhhCCHHHHHHHHhhcCCCChhh
Q 043124           38 SPDQVTMATVLSACAHLGALDLGREIHLYVMQI-GFDIDVYIGSALV-------DMYAKCGSLDRSLLVFFKLREKNLFC  109 (331)
Q Consensus        38 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~-------~~~~~~g~~~~a~~~~~~~~~~~~~~  109 (331)
                      .|.+..|..+.......-.++.|+..|-+.... |++. +.-...+.       ..-+--|++++|+++|-++-++|.  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~-vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrDL--  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKL-VKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRDL--  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhH-HHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhhh--
Confidence            466667777766666666666666666443321 2211 00111110       011112667777777766666553  


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCC--CCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENV--EPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL  187 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  187 (331)
                         .|..+.+.|+|-.+.++++.-- .+.  ..-...++.+...+.....|++|.+.|..-. .         ....+.+
T Consensus       766 ---Aielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~-~---------~e~~~ec  831 (1189)
T KOG2041|consen  766 ---AIELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCG-D---------TENQIEC  831 (1189)
T ss_pred             ---hHHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-c---------hHhHHHH
Confidence               3556666777766665554311 010  1113456666677777777777777766544 1         1334566


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHH
Q 043124          188 LSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIR  267 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  267 (331)
                      +.+..++++-..+.+.++  -+....-.+...+.+.|--++|.+.+-+-  ..|.      .-+..|...++|.+|.++-
T Consensus       832 ly~le~f~~LE~la~~Lp--e~s~llp~~a~mf~svGMC~qAV~a~Lr~--s~pk------aAv~tCv~LnQW~~avela  901 (1189)
T KOG2041|consen  832 LYRLELFGELEVLARTLP--EDSELLPVMADMFTSVGMCDQAVEAYLRR--SLPK------AAVHTCVELNQWGEAVELA  901 (1189)
T ss_pred             HHHHHhhhhHHHHHHhcC--cccchHHHHHHHHHhhchHHHHHHHHHhc--cCcH------HHHHHHHHHHHHHHHHHHH
Confidence            666666666555555554  23344455666677777777776655322  2232      2455677777787777776


Q ss_pred             HHH
Q 043124          268 VAM  270 (331)
Q Consensus       268 ~~m  270 (331)
                      ++.
T Consensus       902 q~~  904 (1189)
T KOG2041|consen  902 QRF  904 (1189)
T ss_pred             Hhc
Confidence            654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.28  E-value=0.22  Score=35.91  Aligned_cols=62  Identities=16%  Similarity=0.140  Sum_probs=42.9

Q ss_pred             HHHHHHcCCHHHHHHHHHhCC----CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          185 VDLLSKAGLLEDALELIRSSK----FQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       185 ~~~~~~~~~~~~a~~~~~~~~----~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      .....+.|++++|.+.|+.+.    ..| ....-..|+.++.+.++++.|...+++.++++|.++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v   83 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV   83 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc
Confidence            444567788888888877652    122 34555667777888888888888888888877766543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.26  E-value=0.051  Score=43.43  Aligned_cols=92  Identities=14%  Similarity=0.018  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC----cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC---CCCcchHHHHH
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS-KFQP----NAVIWGALLGGCKLHRNLEIAHIAVNELMILE---PNNSGYCTLLL  251 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~~~~~~~l~  251 (331)
                      .|+.-+ .+...|++..|..-|..- .--|    ....+..|..++...|+++.|..+|..+.+..   |.-+..+.-|.
T Consensus       144 ~Y~~A~-~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAAL-DLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHH-HHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            455433 344556677777666642 1112    22344556777777777777777777777743   33445566677


Q ss_pred             HHHHhcCCchHHHHHHHHHHh
Q 043124          252 NMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       252 ~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ....+.|+.++|...|+++.+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHH
Confidence            777777777777777777664

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.18  E-value=0.092  Score=44.45  Aligned_cols=231  Identities=10%  Similarity=0.003  Sum_probs=142.6

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHH--HH--CCC-CCCHhhHHHHHHHHHccCCchHHHHHHHHH----HHhCCC-Cchh
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEM--KN--SGI-SPDQVTMATVLSACAHLGALDLGREIHLYV----MQIGFD-IDVY   77 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m--~~--~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~-~~~~   77 (331)
                      .|.-|..+|.-.+++++|++.-..=  +.  .|- .-...+...|.+.+-..|.+++|.-....-    .+.|-. ....
T Consensus        57 IYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~R  136 (639)
T KOG1130|consen   57 IYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESR  136 (639)
T ss_pred             HHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhH
Confidence            4677777788888888888764211  11  110 112234445666666678888876654322    222211 1233


Q ss_pred             HHHHHHHHHHhhCC--------------------HHHHHHHHhhcCC-------C--ChhhHHHHHHHHHhCCCHHHHHH
Q 043124           78 IGSALVDMYAKCGS--------------------LDRSLLVFFKLRE-------K--NLFCWNSIIEGLAVHGFAHEALA  128 (331)
Q Consensus        78 ~~~~l~~~~~~~g~--------------------~~~a~~~~~~~~~-------~--~~~~~~~li~~~~~~~~~~~a~~  128 (331)
                      .+-.+.+.|...|+                    ++.|.++|.+=.+       +  .-.+|..|...|.-.|+++.|+.
T Consensus       137 AlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~  216 (639)
T KOG1130|consen  137 ALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIH  216 (639)
T ss_pred             HHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHH
Confidence            44457777766553                    2333344432111       0  22467777777778899999987


Q ss_pred             HHHHHH----HcCCC-CcHHHHHHHHHHHhccCcHHHHHHHHHhhhh----cCCCCCcHhHHHHHHHHHHHcCCHHHHHH
Q 043124          129 MFDRMI----YENVE-PNGVTFISVLSACTHAGLVEEGRRRFLSMTC----GYSITPEVEHYGCMVDLLSKAGLLEDALE  199 (331)
Q Consensus       129 ~~~~m~----~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  199 (331)
                      .-+.-+    +-|-. .-...+..+..++.-.|+++.|.+.|+....    -..-.....+.-+|...|.-..++++|+.
T Consensus       217 ~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~  296 (639)
T KOG1130|consen  217 FHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAIT  296 (639)
T ss_pred             HHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            765432    22311 2345677788899999999999998887441    11112234455567788888889999988


Q ss_pred             HHHh-------CC-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          200 LIRS-------SK-FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       200 ~~~~-------~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .+.+       ++ ..-....+.+|..++...|.-++|..+.+..++
T Consensus       297 Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  297 YHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            8753       22 223567888999999999999999998888766

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.13  E-value=0.33  Score=35.24  Aligned_cols=126  Identities=16%  Similarity=0.103  Sum_probs=68.7

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHH
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLS  189 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  189 (331)
                      ...++..+...+.+......++.+...+ +.+...++.++..|++.+. ......+..       ..+.......++.|.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~-------~~~~yd~~~~~~~c~   80 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN-------KSNHYDIEKVGKLCE   80 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh-------ccccCCHHHHHHHHH
Confidence            4455666666667777777777776665 3556666777777765432 333333332       011222334566666


Q ss_pred             HcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhc-CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          190 KAGLLEDALELIRSSKFQPNAVIWGALLGGCKLH-RNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       190 ~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      +.+.++++..++.+++...      ..+..+... ++.+.|.+++.+     +.++..|..++..+.
T Consensus        81 ~~~l~~~~~~l~~k~~~~~------~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       81 KAKLYEEAVELYKKDGNFK------DAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             HcCcHHHHHHHHHhhcCHH------HHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            6777777777777666221      122222333 667777666654     233445555555544

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.09  E-value=0.078  Score=42.55  Aligned_cols=98  Identities=9%  Similarity=0.047  Sum_probs=68.2

Q ss_pred             HHHhhcC--CCChhhHHHHHHHHHhC-----CCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc--------------
Q 043124           97 LVFFKLR--EKNLFCWNSIIEGLAVH-----GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA--------------  155 (331)
Q Consensus        97 ~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--------------  155 (331)
                      +.|....  ++|-.+|-..+..+...     +..+-....++.|.+.|+.-|..+|+.|+..+=+.              
T Consensus        55 ~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~H  134 (406)
T KOG3941|consen   55 KQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLH  134 (406)
T ss_pred             hhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhh
Confidence            3444444  44556666666655432     44566666777788888888888888888776443              


Q ss_pred             --CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHH
Q 043124          156 --GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLE  195 (331)
Q Consensus       156 --~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  195 (331)
                        .+-+-++.++++|. .+|+.||-.+-..|+.++.+.+-.-
T Consensus       135 YP~QQ~C~I~vLeqME-~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  135 YPQQQNCAIKVLEQME-WHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             CchhhhHHHHHHHHHH-HcCCCCchHHHHHHHHHhccccccH
Confidence              23356788889998 8899999888888888888877543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.09  E-value=0.55  Score=37.42  Aligned_cols=158  Identities=15%  Similarity=0.045  Sum_probs=85.9

Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcC--CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH--
Q 043124          115 EGLAVHGFAHEALAMFDRMIYEN--VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK--  190 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  190 (331)
                      ....+.|++++|.+.|+.+....  -+-...+...++-++.+.++++.|....++..+.++-.|+. -|...|.+++.  
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~YlkgLs~~~  120 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAYYLKGLSYFF  120 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHHHHHHHHHhc
Confidence            33445566666666666655431  11123344444555556666666666666655444444432 22223333321  


Q ss_pred             -----cCCHHHHHHHHHhC-------C---CCCcHHH----------H--HHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          191 -----AGLLEDALELIRSS-------K---FQPNAVI----------W--GALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       191 -----~~~~~~a~~~~~~~-------~---~~p~~~~----------~--~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                           ..+...+..-+..+       +   ..||...          .  ..+.+-|.+.|.+..|..-++++++.-|+.
T Consensus       121 ~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t  200 (254)
T COG4105         121 QIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENYPDT  200 (254)
T ss_pred             cCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhccccc
Confidence                 12222222222211       1   2222221          1  234445889999999999999999976665


Q ss_pred             cch---HHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          244 SGY---CTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       244 ~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...   +..+..+|...|..++|...-+-+..+
T Consensus       201 ~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         201 SAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             cchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            544   455778899999999998877665543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.01  E-value=0.9  Score=39.29  Aligned_cols=128  Identities=13%  Similarity=0.108  Sum_probs=84.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHhhhhcCC-CCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcHHHH-HHHHHHH
Q 043124          144 TFISVLSACTHAGLVEEGRRRFLSMTCGYS-ITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPNAVIW-GALLGGC  220 (331)
Q Consensus       144 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~~~~-~~l~~~~  220 (331)
                      .|...+.+..+..-.+.|..+|-+.. +.+ +.+++..+++++..++ .|+..-|..+|+- +..-||...| +..+.-+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~r-k~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLR-KEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHh-ccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            34455666666777788888888888 445 5667778888776554 5677778888774 3334554433 4555556


Q ss_pred             hhcCCHHHHHHHHHHHHhcCC--CCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          221 KLHRNLEIAHIAVNELMILEP--NNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...++-+.|..+|+..++.-.  .-...|..++.--..-|+...+..+-++|.+.
T Consensus       477 i~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         477 IRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            777888888888887665221  22456777777777778877777666666543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.97  E-value=0.36  Score=40.36  Aligned_cols=216  Identities=11%  Similarity=0.016  Sum_probs=91.0

Q ss_pred             ccCCchHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhhCCHHHHHHHH-------hhcCCC--ChhhHHHHHHHHHhCC
Q 043124           53 HLGALDLGREIHLYVMQIG--FDIDVYIGSALVDMYAKCGSLDRSLLVF-------FKLREK--NLFCWNSIIEGLAVHG  121 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~-------~~~~~~--~~~~~~~li~~~~~~~  121 (331)
                      .+.+.++++..|.+.+..-  ....-.++..+..+..+.|.+++++..-       .+..+.  -..+|..+..++-+..
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555554443320  0111234444555555555555544321       111111  1134445555555555


Q ss_pred             CHHHHHHHHHHHHHc-CCCC---cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC----CCCCcHhHHHHHHHHHHHcCC
Q 043124          122 FAHEALAMFDRMIYE-NVEP---NGVTFISVLSACTHAGLVEEGRRRFLSMTCGY----SITPEVEHYGCMVDLLSKAGL  193 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~-~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~  193 (331)
                      ++.+++.+-..-... |..|   ......++..++...+.++++.+.|+...+-.    +......++..|...|.+..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            555555444433222 1111   11222234455555555555555555543211    111223455555555666666


Q ss_pred             HHHHHHHHHh-------CCCCCcH-----HHHHHHHHHHhhcCCHHHHHHHHHHHHh--cC----CCCcchHHHHHHHHH
Q 043124          194 LEDALELIRS-------SKFQPNA-----VIWGALLGGCKLHRNLEIAHIAVNELMI--LE----PNNSGYCTLLLNMYA  255 (331)
Q Consensus       194 ~~~a~~~~~~-------~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~----p~~~~~~~~l~~~~~  255 (331)
                      +++|.-+..+       .++..-.     .....+..++...|....|.+..+++.+  +.    |........+.+.|.
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            5555443321       2211111     1122233345555555555555555544  11    222222334555555


Q ss_pred             hcCCchHHHHHHH
Q 043124          256 EVSRWAEVTKIRV  268 (331)
Q Consensus       256 ~~g~~~~a~~~~~  268 (331)
                      ..|+.+.|+.-|+
T Consensus       258 ~~gd~e~af~rYe  270 (518)
T KOG1941|consen  258 SRGDLERAFRRYE  270 (518)
T ss_pred             hcccHhHHHHHHH
Confidence            6666555554444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.96  E-value=0.57  Score=36.59  Aligned_cols=193  Identities=20%  Similarity=0.108  Sum_probs=87.8

Q ss_pred             hHHHHHHHHHHhhCCHHHHHHHHhhcCC-----CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH-
Q 043124           77 YIGSALVDMYAKCGSLDRSLLVFFKLRE-----KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLS-  150 (331)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~-  150 (331)
                      .........+...+++..+...+.....     .....+......+...+++..+.+.+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            3444444555555555555554444321     123344444445555555555555555555432222 111111112 


Q ss_pred             HHhccCcHHHHHHHHHhhhhcCCC--CCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc--HHHHHHHHHHHhhcCC
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGYSI--TPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN--AVIWGALLGGCKLHRN  225 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~--~~~~~~l~~~~~~~~~  225 (331)
                      .+...|+++.|...+..... ...  ......+......+...++.+.+...+.+. ...++  ...+..+...+...++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         139 ALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence            45555555555555555541 110  011222222233344455555555555542 22222  3444444555555555


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          226 LEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       226 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++.+...+.......|.....+..+...+...|.++.+...+.+..
T Consensus       218 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             HHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666666665555433333444444444455555555555544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.95  E-value=0.97  Score=39.11  Aligned_cols=202  Identities=13%  Similarity=0.068  Sum_probs=109.0

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHH-------HHHHH-c---cCCchHHHHHHHHHHHhCCCC
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATV-------LSACA-H---LGALDLGREIHLYVMQIGFDI   74 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-------~~~~~-~---~~~~~~a~~~~~~~~~~~~~~   74 (331)
                      +.+|..++....+.++..+|.+.+.-+...  .|+...-.-+       -+..+ .   .-+...-+.+|+.....++..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr  375 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR  375 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH
Confidence            346788888888888888888888766654  3443321111       11121 1   112223345555555544332


Q ss_pred             chhHHHHHHH---HHHhhCC-HHHHHHHHhhcCC---CChhhHHHHHH----HHH---hCCCHHHHHHHHHHHHHcCCCC
Q 043124           75 DVYIGSALVD---MYAKCGS-LDRSLLVFFKLRE---KNLFCWNSIIE----GLA---VHGFAHEALAMFDRMIYENVEP  140 (331)
Q Consensus        75 ~~~~~~~l~~---~~~~~g~-~~~a~~~~~~~~~---~~~~~~~~li~----~~~---~~~~~~~a~~~~~~m~~~~~~p  140 (331)
                      .. .-.-|+.   -+.+.|. -++|..+++.+.+   .|..+-|.+..    .|.   ......+-+.+-+-+.+.|++|
T Consensus       376 qQ-Lvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~  454 (549)
T PF07079_consen  376 QQ-LVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTP  454 (549)
T ss_pred             HH-HHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCc
Confidence            21 1122222   2444455 6777777776653   24433332221    111   1233444555555555667665


Q ss_pred             cHH----HHHHHH--HHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHH
Q 043124          141 NGV----TFISVL--SACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWG  214 (331)
Q Consensus       141 ~~~----~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~  214 (331)
                      -..    .-|.|.  ..+...|++.++...-..+.   .+.|++.+|..+.-++....++++|.+++..++  |+..+++
T Consensus       455 i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~d  529 (549)
T PF07079_consen  455 ITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRD  529 (549)
T ss_pred             ccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHH
Confidence            332    222222  23456677777765544444   457788888877777778888888888888776  4555554


Q ss_pred             H
Q 043124          215 A  215 (331)
Q Consensus       215 ~  215 (331)
                      .
T Consensus       530 s  530 (549)
T PF07079_consen  530 S  530 (549)
T ss_pred             H
Confidence            3

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.91  E-value=0.71  Score=40.72  Aligned_cols=135  Identities=15%  Similarity=0.044  Sum_probs=100.0

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ....+.++..+-+.|..+.|+++-         .|+.   .-.....+.|+++.|.++.++      .++...|..|.+.
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~---------~D~~---~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~  356 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFV---------TDPD---HRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDE  356 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHS---------S-HH---HHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhc---------CChH---HHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHH
Confidence            344788889999999999998763         2433   234556678999999887542      3467799999999


Q ss_pred             HHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           86 YAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      ..+.|+++-|++.|++...     +..|+-.|.-.|+.+...++.+.....|-      ++....++.-.|+.++..+++
T Consensus       357 AL~~g~~~lAe~c~~k~~d-----~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL  425 (443)
T PF04053_consen  357 ALRQGNIELAEECYQKAKD-----FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLL  425 (443)
T ss_dssp             HHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHhhcC-----ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999999875     77788888899999888888888777762      444555566678888888888


Q ss_pred             Hhhh
Q 043124          166 LSMT  169 (331)
Q Consensus       166 ~~~~  169 (331)
                      .+..
T Consensus       426 ~~~~  429 (443)
T PF04053_consen  426 IETG  429 (443)
T ss_dssp             HHTT
T ss_pred             HHcC
Confidence            7654

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.83  E-value=0.098  Score=41.85  Aligned_cols=82  Identities=13%  Similarity=0.127  Sum_probs=37.3

Q ss_pred             hCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC-C-CCcHHHHHHHHHHHhccCcHHH
Q 043124           89 CGSLDRSLLVFFKLREK------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN-V-EPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~-~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      .|++..|...|....+.      ...++.-|..++...|++++|..+|..+.+.- - +--+..+..|.....+.|+.++
T Consensus       154 sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~  233 (262)
T COG1729         154 SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDE  233 (262)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHH
Confidence            34455555555544431      12234445555555555555555555544431 0 1112334444444455555555


Q ss_pred             HHHHHHhhhh
Q 043124          161 GRRRFLSMTC  170 (331)
Q Consensus       161 a~~~~~~~~~  170 (331)
                      |..+|+++.+
T Consensus       234 A~atl~qv~k  243 (262)
T COG1729         234 ACATLQQVIK  243 (262)
T ss_pred             HHHHHHHHHH
Confidence            5555555553

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.78  E-value=0.078  Score=43.02  Aligned_cols=68  Identities=16%  Similarity=0.170  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh-----cCCCCC
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE-----LGIEKR  278 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~  278 (331)
                      .++..++..+...|+.+.+...+++....+|-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|.
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~  226 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPA  226 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCcc
Confidence            45667788888889999999999999999999999999999999999999999999988755     556655

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.76  E-value=0.7  Score=36.05  Aligned_cols=222  Identities=17%  Similarity=0.064  Sum_probs=158.7

Q ss_pred             CCChhHHHHHHHHHHHCCCC-CCHhhHHHHHHHHHccCCchHHHHHHHHHHHh-CCCCchhHHHHHHHHHHhhCCHHHHH
Q 043124           19 NKQFREALDAFNEMKNSGIS-PDQVTMATVLSACAHLGALDLGREIHLYVMQI-GFDIDVYIGSALVDMYAKCGSLDRSL   96 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~   96 (331)
                      .+....+...+......... .....+......+...+++..+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            35566666666666655322 13567777778888899999999988887763 23445667777888888889999999


Q ss_pred             HHHhhcCCC--C-hhhHHHHHH-HHHhCCCHHHHHHHHHHHHHcCC--CCcHHHHHHHHHHHhccCcHHHHHHHHHhhhh
Q 043124           97 LVFFKLREK--N-LFCWNSIIE-GLAVHGFAHEALAMFDRMIYENV--EPNGVTFISVLSACTHAGLVEEGRRRFLSMTC  170 (331)
Q Consensus        97 ~~~~~~~~~--~-~~~~~~li~-~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  170 (331)
                      +.+......  + ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+.....
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         116 ELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            999887753  2 223344444 78899999999999999866321  12334444445556788999999999999883


Q ss_pred             cCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          171 GYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       171 ~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      ..  .. ....+..+...+...++++.|...+... ...|+ ...+..+...+...+..+.+...+.+.....|.
T Consensus       196 ~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         196 LN--PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             hC--cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            32  23 3667788888899999999999998864 34454 445555555555777899999999999998887

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.72  E-value=0.42  Score=39.57  Aligned_cols=148  Identities=9%  Similarity=0.008  Sum_probs=80.1

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh---CCCCchhHHHHHHHHHHhhCCHHHH
Q 043124           19 NKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQI---GFDIDVYIGSALVDMYAKCGSLDRS   95 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a   95 (331)
                      +|++.+|-..++++.+. .+.|...+...=.+|.-.|+...-...++++...   ++|-...+...+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            45555565666666654 3445555555555666666666666666655443   2222233344444455566777777


Q ss_pred             HHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCC---CCcHHHHHHHHHHHhccCcHHHHHHHHHh
Q 043124           96 LLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENV---EPNGVTFISVLSACTHAGLVEEGRRRFLS  167 (331)
Q Consensus        96 ~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  167 (331)
                      ++.-++..+-   |.-+..++...+-..|++.++.+...+-...--   ..-...|-...-.+...+.++.|..+|+.
T Consensus       195 Ek~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  195 EKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            7766655543   444555566666666777777766655432210   01112233333345555777777777665

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.70  E-value=0.03  Score=29.12  Aligned_cols=32  Identities=16%  Similarity=0.038  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      .+|..+..++...|++++|...++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            35666667777777777777777777777775

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 ....

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.70  E-value=0.95  Score=37.59  Aligned_cols=126  Identities=10%  Similarity=0.125  Sum_probs=80.5

Q ss_pred             chHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--h----CCHHHHHHHHhhcCCC-------ChhhHHHHHHHHHhCCC-
Q 043124           57 LDLGREIHLYVMQIGFDIDVYIGSALVDMYAK--C----GSLDRSLLVFFKLREK-------NLFCWNSIIEGLAVHGF-  122 (331)
Q Consensus        57 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----g~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~~~~-  122 (331)
                      ++....+++.+.+.|+.-+..++-+..-....  .    ....+|.++|+.|++.       +-.++..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45566788889999998887766653333332  1    2356788999999863       33455555443  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCcH--HHHHHHHHHHhccCc--HHHHHHHHHhhhhcCCCCCcHhHHHHHH
Q 043124          123 ---AHEALAMFDRMIYENVEPNG--VTFISVLSACTHAGL--VEEGRRRFLSMTCGYSITPEVEHYGCMV  185 (331)
Q Consensus       123 ---~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~  185 (331)
                         .+.++.+|+.+.+.|+..+.  .....++..+.....  ...+..+++.+. +.++++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~-~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALK-KNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHH-HcCCccccccccHHH
Confidence               46778888888888866543  333334433333322  347888888888 668888887777554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.67  E-value=0.044  Score=28.39  Aligned_cols=32  Identities=28%  Similarity=0.233  Sum_probs=21.2

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      .+..+...+...|++++|.+.+++++++.|++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            44556666777777777777777777777653

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 ....

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.67  E-value=1.2  Score=38.08  Aligned_cols=148  Identities=10%  Similarity=-0.004  Sum_probs=69.4

Q ss_pred             HccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCCh---------------hhHHHHHHH
Q 043124           52 AHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNL---------------FCWNSIIEG  116 (331)
Q Consensus        52 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---------------~~~~~li~~  116 (331)
                      ...|+.++|.++--..++.. ..+....-.-..++.-.++.+.|...|++-...++               ..+..-.+-
T Consensus       180 ~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~  258 (486)
T KOG0550|consen  180 AFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGND  258 (486)
T ss_pred             hhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhh
Confidence            44555555555554444432 11222222222233344555555555555543221               123333444


Q ss_pred             HHhCCCHHHHHHHHHHHHHcC---CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcC
Q 043124          117 LAVHGFAHEALAMFDRMIYEN---VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAG  192 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  192 (331)
                      ..+.|++..|.+.|.+.+...   +.|+...|........+.|+.++|+.--++..   .+.++ +..|..-..++...+
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSSYIKALLRRANCHLALE  335 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHHHHHHHHHHHHHHHHHH
Confidence            555666666666666655432   33444455555555556666666666555555   12222 222222233444556


Q ss_pred             CHHHHHHHHHh
Q 043124          193 LLEDALELIRS  203 (331)
Q Consensus       193 ~~~~a~~~~~~  203 (331)
                      +|++|.+-+++
T Consensus       336 ~~e~AV~d~~~  346 (486)
T KOG0550|consen  336 KWEEAVEDYEK  346 (486)
T ss_pred             HHHHHHHHHHH
Confidence            66666555553

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.66  E-value=0.76  Score=38.14  Aligned_cols=114  Identities=11%  Similarity=0.038  Sum_probs=47.5

Q ss_pred             CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHh--HHHHHH--HHHHHcCCHH
Q 043124          120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE--HYGCMV--DLLSKAGLLE  195 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~l~--~~~~~~~~~~  195 (331)
                      .|++.+|-..++++.+. .|.|...+...=.+|.-.|+.+.-...++++...  ..++..  +|..=|  -++...|-++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            34444444455554443 3444444444444455555554444444444411  122221  111111  1223445555


Q ss_pred             HHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 043124          196 DALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNEL  236 (331)
Q Consensus       196 ~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  236 (331)
                      +|.+.-++ +.++| |...-.++...+-..++.+++.+++.+-
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            55554443 22222 3333344444444455555555544443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.63  E-value=0.56  Score=34.01  Aligned_cols=43  Identities=7%  Similarity=0.182  Sum_probs=20.8

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAH   53 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   53 (331)
                      ..++..+...+.......+++.+...+ ..+...++.++..|++
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            344455554555555555555554443 2344444555555543

>PRK11906 transcriptional regulator; Provisional

Probab=95.61  E-value=0.45  Score=41.36  Aligned_cols=131  Identities=13%  Similarity=0.046  Sum_probs=89.5

Q ss_pred             HHH--HHHHHHHhc-----cCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHc---------CCHHHHHHHHHh-C
Q 043124          143 VTF--ISVLSACTH-----AGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKA---------GLLEDALELIRS-S  204 (331)
Q Consensus       143 ~~~--~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~-~  204 (331)
                      ..|  ...+++...     ..+.+.|..+|.+......+.|+ ...|..+..++...         ....+|.+..+. .
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            445  445555443     23456788899988855556665 44444444433221         223344444443 2


Q ss_pred             CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          205 KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       205 ~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...| |......+..+....++++.|...|+++..++|+....|........-.|+.++|.+.+++..+.
T Consensus       332 eld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        332 DITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             hcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            3344 56666666666777888999999999999999999999998999999999999999999986544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.58  E-value=0.34  Score=34.17  Aligned_cols=88  Identities=16%  Similarity=-0.028  Sum_probs=65.2

Q ss_pred             HHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC----C---hhhHHHHHHHHHhCC
Q 043124           49 SACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK----N---LFCWNSIIEGLAVHG  121 (331)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~---~~~~~~li~~~~~~~  121 (331)
                      .+.+..|+.+.|++.|.+.+..- +.....||.-..++.-.|+.++|++=+++..+-    +   -.+|..-...|...|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            35667888888888888888763 457788888888888888888888777765531    1   124555566677788


Q ss_pred             CHHHHHHHHHHHHHcC
Q 043124          122 FAHEALAMFDRMIYEN  137 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~  137 (331)
                      +-+.|..=|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888888887776

>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=95.51  E-value=1.2  Score=36.82  Aligned_cols=53  Identities=8%  Similarity=-0.073  Sum_probs=29.5

Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHH-------HHHccC-CchHHHHHHHHHHH
Q 043124           17 SQNKQFREALDAFNEMKNSGISPDQVTMATVLS-------ACAHLG-ALDLGREIHLYVMQ   69 (331)
Q Consensus        17 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~-------~~~~~~-~~~~a~~~~~~~~~   69 (331)
                      .+.|+++.|..++.+........++.....|..       .....+ +++.|...+++..+
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~   64 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYD   64 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence            467888889888888766431223222222222       223344 67777666665544

It is also involved in sporulation [].

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.35  E-value=0.57  Score=35.59  Aligned_cols=60  Identities=13%  Similarity=0.077  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc--HHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPN--GVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      +..+...|++.|+.+.|++.|.++.+....+.  ...+..+|+.....+++..+.....+..
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            44444445555555555555555444322222  1222334444444555555444444433

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.17  E-value=1.6  Score=40.76  Aligned_cols=23  Identities=17%  Similarity=0.241  Sum_probs=11.2

Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhc
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKL  102 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~  102 (331)
                      +.|+.+|.+.++.++-.++.+..
T Consensus       435 tlLLncYiKlkd~~kL~efI~~~  457 (933)
T KOG2114|consen  435 TLLLNCYIKLKDVEKLTEFISKC  457 (933)
T ss_pred             HHHHHHHHHhcchHHHHHHHhcC
Confidence            34455555555555544444443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.13  E-value=0.94  Score=33.83  Aligned_cols=128  Identities=15%  Similarity=0.106  Sum_probs=69.7

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHH-HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHh-HHHHH--
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGV-TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVE-HYGCM--  184 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l--  184 (331)
                      .|..-+. +.+.+..++|+..|..+.+.|...-+. ...-........|+...|...|+++-.... .|.+. -...|  
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~-~P~~~rd~ARlra  138 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTS-IPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCC-CcchhhHHHHHHH
Confidence            4443333 456677788888888887776432221 111233445677788888888888774332 22221 11111  


Q ss_pred             HHHHHHcCCHHHHHHHHHhCCCCCc---HHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          185 VDLLSKAGLLEDALELIRSSKFQPN---AVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       185 ~~~~~~~~~~~~a~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .-.+..+|.++......+.+...-+   ...-..|.-+-.+.|++..|.+.|..+..
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            1234567777777666665432111   12223444445677777777777777665

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.99  E-value=0.21  Score=35.17  Aligned_cols=88  Identities=22%  Similarity=0.166  Sum_probs=62.8

Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc-CCCCcc---hHHHHHHHHHhcCCc
Q 043124          187 LLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMIL-EPNNSG---YCTLLLNMYAEVSRW  260 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~---~~~~l~~~~~~~g~~  260 (331)
                      ++...|+.+.|++.|.+. .+-| ....||.=..++.-.|+.++|.+=+++++++ +|...+   .|..-...|...|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            456778888888888763 3333 5677888888888888888888888888873 344332   244456677788888


Q ss_pred             hHHHHHHHHHHhcC
Q 043124          261 AEVTKIRVAMKELG  274 (331)
Q Consensus       261 ~~a~~~~~~m~~~~  274 (331)
                      +.|..-|+...+.|
T Consensus       132 d~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  132 DAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHhHHHHHHhC
Confidence            88888888877666

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.84  E-value=0.94  Score=32.13  Aligned_cols=136  Identities=14%  Similarity=0.138  Sum_probs=70.3

Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHH---HHHHHHHHhhCCHH
Q 043124           17 SQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIG---SALVDMYAKCGSLD   93 (331)
Q Consensus        17 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~   93 (331)
                      .-.|..++..++..+..+..   +..-+|-++--....-+-+-..++++.   .|---|...+   ...+.+|++.|...
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~Lds---IGkiFDis~C~NlKrVi~C~~~~n~~s   86 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDS---IGKIFDISKCGNLKRVIECYAKRNKLS   86 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHH---HGGGS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHH---HhhhcCchhhcchHHHHHHHHHhcchH
Confidence            34566666666666665532   333344343333333344444333333   2221222221   22344444444332


Q ss_pred             HHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC
Q 043124           94 RSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS  173 (331)
Q Consensus        94 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  173 (331)
                                    ......+..+...|+-+.-.+++.++.+.+ .+++.....+..+|.+.|+..++..++++.- +.|
T Consensus        87 --------------e~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~AC-ekG  150 (161)
T PF09205_consen   87 --------------EYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEAC-EKG  150 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH-HTT
T ss_pred             --------------HHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH-Hhc
Confidence                          234456677788888888888888887643 6777777888888888888888888888876 445


Q ss_pred             C
Q 043124          174 I  174 (331)
Q Consensus       174 ~  174 (331)
                      +
T Consensus       151 ~  151 (161)
T PF09205_consen  151 L  151 (161)
T ss_dssp             -
T ss_pred             h
Confidence            4

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.84  E-value=0.078  Score=28.07  Aligned_cols=25  Identities=12%  Similarity=0.383  Sum_probs=14.4

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEM   32 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m   32 (331)
                      +|+.|...|.+.|++++|+++|++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3555666666666666666666653

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.79  E-value=1.9  Score=35.27  Aligned_cols=140  Identities=11%  Similarity=0.042  Sum_probs=82.9

Q ss_pred             HHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCC-hhhH---HHHHHHHHhCCCHHH
Q 043124           50 ACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKN-LFCW---NSIIEGLAVHGFAHE  125 (331)
Q Consensus        50 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~---~~li~~~~~~~~~~~  125 (331)
                      .....|++..|...|+...... +-+..+-..+..+|...|+.+.|..++..+.... ...+   ..-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            4557788888888888888774 3356666778889999999999999998886431 1112   223344444444433


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcC
Q 043124          126 ALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAG  192 (331)
Q Consensus       126 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  192 (331)
                      ...+-.+.-+.  +-|...-..+...+...|+.+.|...+-.+.++..-.-+...-..++..+...|
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            33333333221  225555555667777778888777666555533222233344445555444433

>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=94.74  E-value=0.67  Score=35.23  Aligned_cols=61  Identities=7%  Similarity=0.001  Sum_probs=35.1

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhhCCHHHHHHHHhhcC
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGFDID--VYIGSALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      .+..+...|.+.|+.+.|.+.+.++.+....+.  ...+-.+++...-.|++..+.....+..
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            455666666666666666666666655533322  2344455666666666666665555443

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.71  E-value=0.09  Score=27.83  Aligned_cols=26  Identities=12%  Similarity=0.203  Sum_probs=16.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMI  134 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~  134 (331)
                      +|..|...|.+.|++++|+++|++..
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            35566666677777777777766643

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.70  E-value=1.7  Score=34.45  Aligned_cols=203  Identities=12%  Similarity=0.116  Sum_probs=108.0

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYA   87 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (331)
                      .|..-..+|...+++++|-..+.+..+. .+.+...|..       ...++.|.-+.+++.+.  .--+..++.-...|.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-------AKayEqaamLake~~kl--sEvvdl~eKAs~lY~  102 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-------AKAYEQAAMLAKELSKL--SEVVDLYEKASELYV  102 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-------HHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHH
Confidence            3555566777788888888877776542 2333332221       12233444444444432  122344555566677


Q ss_pred             hhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc---C--CCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           88 KCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYE---N--VEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~--~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      ..|..+-|-..+++.-+            ....-++++|+++|++....   +  ..--...+..+-+.+.+...+++|-
T Consensus       103 E~GspdtAAmaleKAak------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa  170 (308)
T KOG1585|consen  103 ECGSPDTAAMALEKAAK------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAA  170 (308)
T ss_pred             HhCCcchHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHH
Confidence            77776666555544321            12344566666666654321   1  0111233444555666666666665


Q ss_pred             HHHHhhhh---cCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHh---CC--CC-CcHHHHHHHHHHHhhcCCHHHHHHH
Q 043124          163 RRFLSMTC---GYSITPE-VEHYGCMVDLLSKAGLLEDALELIRS---SK--FQ-PNAVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       163 ~~~~~~~~---~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~---~~--~~-p~~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      ..+.+-..   ...-.++ ...|...|-.+.-..++..|..+++.   ++  .. -+..+...|+.+| ..||.+++.++
T Consensus       171 ~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  171 TAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            54443220   1111223 24456666667777788888888876   33  22 2466777777776 46777777665


Q ss_pred             H
Q 043124          233 V  233 (331)
Q Consensus       233 ~  233 (331)
                      +
T Consensus       250 l  250 (308)
T KOG1585|consen  250 L  250 (308)
T ss_pred             H
Confidence            4

>PRK11906 transcriptional regulator; Provisional

Probab=94.66  E-value=2.8  Score=36.70  Aligned_cols=113  Identities=9%  Similarity=-0.055  Sum_probs=61.7

Q ss_pred             CchHHHHHHHHHHHh-CCCCc-hhHHHHHHHHHHhh---------CCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCC
Q 043124           56 ALDLGREIHLYVMQI-GFDID-VYIGSALVDMYAKC---------GSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHG  121 (331)
Q Consensus        56 ~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~---------g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~  121 (331)
                      +.+.|..+|.+.... ...|+ ...|..+..++...         ....+|.++-++..+   .|..+...+..++...+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            446677778777722 22333 44454444443321         223344444444332   35556666666666666


Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      +++.|...|++....+ |-...+|......+.-.|+.++|.+.+++..
T Consensus       353 ~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        353 QAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             chhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            6777777777776653 2234444444445556677777777777755

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.63  E-value=0.33  Score=32.46  Aligned_cols=62  Identities=13%  Similarity=0.120  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          123 AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      .-+..+-++.+...++.|++....+.+++|.+.+++..|.++|+.++.+.+..  ...|..+++
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            34677777777778888999999999999999999999999999998665533  336776654

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.61  E-value=4  Score=38.31  Aligned_cols=214  Identities=12%  Similarity=0.047  Sum_probs=131.9

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHH----CC------------CCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhC
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKN----SG------------ISPDQVTMATVLSACAHLGALDLGREIHLYVMQIG   71 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~----~~------------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   71 (331)
                      +.|.++.+|...+.+-.-.-++.+...    .+            ..........-+....+...++.|+.+-   +..+
T Consensus       285 s~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LA---k~~~  361 (933)
T KOG2114|consen  285 SSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLA---KSQH  361 (933)
T ss_pred             chhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHH---HhcC
Confidence            456777777777776554444443322    12            0112233455666677777777776653   3444


Q ss_pred             CCCc--hhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 043124           72 FDID--VYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVL  149 (331)
Q Consensus        72 ~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  149 (331)
                      ..++  ..++....+.+.+.|++++|...|-+-...-..  ..+|.-|.......+-..+++.+.+.|+. +...-..|+
T Consensus       362 ~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~--s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLL  438 (933)
T KOG2114|consen  362 LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEP--SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLL  438 (933)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCCh--HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHH
Confidence            3333  234455566677889999998887655432111  12455566667777888888888888864 445556688


Q ss_pred             HHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHH
Q 043124          150 SACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       150 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      .+|.+.++.+.-.++.+... +.-+.-|   ....+..+.+.+-.++|..+-.+.+.  +......+   +-..+++++|
T Consensus       439 ncYiKlkd~~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl~~a~~LA~k~~~--he~vl~il---le~~~ny~eA  509 (933)
T KOG2114|consen  439 NCYIKLKDVEKLTEFISKCD-KGEWFFD---VETALEILRKSNYLDEAELLATKFKK--HEWVLDIL---LEDLHNYEEA  509 (933)
T ss_pred             HHHHHhcchHHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChHHHHHHHHHHhcc--CHHHHHHH---HHHhcCHHHH
Confidence            99999999988777766654 2111112   34456667777788888777776653  33333333   3467889999


Q ss_pred             HHHHHHH
Q 043124          230 HIAVNEL  236 (331)
Q Consensus       230 ~~~~~~~  236 (331)
                      .+++..+
T Consensus       510 l~yi~sl  516 (933)
T KOG2114|consen  510 LRYISSL  516 (933)
T ss_pred             HHHHhcC
Confidence            9887664

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.60  E-value=0.5  Score=38.49  Aligned_cols=79  Identities=15%  Similarity=0.227  Sum_probs=60.9

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhh----cCCCCCcHhHHHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTC----GYSITPEVEHYGC  183 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~  183 (331)
                      .++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+    ..|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            456777788888888888888888888874 66788888888888888888888888887663    4577777776665


Q ss_pred             HHHH
Q 043124          184 MVDL  187 (331)
Q Consensus       184 l~~~  187 (331)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5554

>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=94.57  E-value=0.63  Score=34.30  Aligned_cols=58  Identities=16%  Similarity=0.032  Sum_probs=33.9

Q ss_pred             HHcCCHHHHHHHHHhCC-CCCcHHHHHHHH-HHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          189 SKAGLLEDALELIRSSK-FQPNAVIWGALL-GGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~~-~~p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      .+.++.+++..++..+. +.|.......+- ..+...|++.+|.++|+++.+..|..+..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~   80 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYA   80 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHH
Confidence            45667777777776653 445433332222 12566777777777777766666654444

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=94.48  E-value=0.85  Score=32.44  Aligned_cols=91  Identities=9%  Similarity=0.103  Sum_probs=63.2

Q ss_pred             CCcHHHHHHHHHHHhhcCC---HHHHHHHHHHHHh-cCCCCc-chHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCc
Q 043124          207 QPNAVIWGALLGGCKLHRN---LEIAHIAVNELMI-LEPNNS-GYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPG  281 (331)
Q Consensus       207 ~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~-~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  281 (331)
                      .++..+--.+..++++..+   ..+...++++..+ -.|... .....|.-++.+.++++.++++.+.+.+         
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~---------   99 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE---------   99 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh---------
Confidence            4555555566666665544   5566778888876 445432 2334577788889999999999888873         


Q ss_pred             cceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhcCcc
Q 043124          282 SSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYV  324 (331)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~g~~  324 (331)
                                        ..|++.++...=..+++.|.+.|++
T Consensus       100 ------------------~e~~n~Qa~~Lk~~ied~itkegli  124 (149)
T KOG3364|consen  100 ------------------TEPNNRQALELKETIEDKITKEGLI  124 (149)
T ss_pred             ------------------hCCCcHHHHHHHHHHHHHHhhccee
Confidence                              4577778887777888888887754

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=94.44  E-value=0.25  Score=28.89  Aligned_cols=49  Identities=10%  Similarity=0.115  Sum_probs=40.3

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhcCc
Q 043124          248 TLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASY  323 (331)
Q Consensus       248 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~g~  323 (331)
                      ..+..++.+.|++++|.+..+.+.+                           .+|++..+......+-+.+.+.|+
T Consensus         5 Y~lAig~ykl~~Y~~A~~~~~~lL~---------------------------~eP~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    5 YYLAIGHYKLGEYEKARRYCDALLE---------------------------IEPDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHH---------------------------HTTS-HHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHh---------------------------hCCCcHHHHHHHHHHHHHHhccCC
Confidence            4577889999999999999999984                           468899999988889888888874

>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=94.43  E-value=0.095  Score=38.23  Aligned_cols=86  Identities=12%  Similarity=0.155  Sum_probs=55.8

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.+....+++.       .+..-...+++.+.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcc
Confidence            35666777778888888888888766556677778888888888777777776651       11122334566666667


Q ss_pred             CHHHHHHHHhhcC
Q 043124           91 SLDRSLLVFFKLR  103 (331)
Q Consensus        91 ~~~~a~~~~~~~~  103 (331)
                      .+++|.-++.++.
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            7777666666554

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=94.36  E-value=0.12  Score=26.75  Aligned_cols=31  Identities=16%  Similarity=0.042  Sum_probs=20.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      +|..+...+...|++++|.+.|++.++..|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4555566677777777777777777776663

...

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.36  E-value=1.4  Score=31.89  Aligned_cols=77  Identities=6%  Similarity=-0.081  Sum_probs=47.4

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhh
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGI--SPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKC   89 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (331)
                      .....+.|++++|.+.|+.+...-.  +-....--.|+.++.+.++++.|...++..++........-|...+.+++.-
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            3444567778888888877776521  1133445566777777888888888887777765433334455555554443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.28  E-value=2.6  Score=34.76  Aligned_cols=215  Identities=10%  Similarity=0.010  Sum_probs=117.9

Q ss_pred             HccCCchHHHHHHHHHHHhC--CCCchh------HHHHHHHHHHhhC-CHHHHHHHHhhcC----------C--CC----
Q 043124           52 AHLGALDLGREIHLYVMQIG--FDIDVY------IGSALVDMYAKCG-SLDRSLLVFFKLR----------E--KN----  106 (331)
Q Consensus        52 ~~~~~~~~a~~~~~~~~~~~--~~~~~~------~~~~l~~~~~~~g-~~~~a~~~~~~~~----------~--~~----  106 (331)
                      .+.|+.+.|..++.++....  ..|+..      .|+. .....+.+ +++.|...+++..          +  ++    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~-G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNI-GKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHH-HHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46799999999998887643  233321      2322 23334455 8777766654332          1  22    


Q ss_pred             -hhhHHHHHHHHHhCCCHH---HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHH
Q 043124          107 -LFCWNSIIEGLAVHGFAH---EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYG  182 (331)
Q Consensus       107 -~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  182 (331)
                       ..+...++.+|...+..+   +|..+++.+.... +-.+..+..-+..+.+.++.+.+.+.+.+|....+  -....+.
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~--~~e~~~~  159 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD--HSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc--cccchHH
Confidence             246788888998887755   5666666665442 22345555567777779999999999999994433  1223444


Q ss_pred             HHHHHH---HHcCCHHHHHHHHHhC---CCCCcHH-HHH-HHHHH-H--hhcCC------HHHHHHHHHHHHh--cCCCC
Q 043124          183 CMVDLL---SKAGLLEDALELIRSS---KFQPNAV-IWG-ALLGG-C--KLHRN------LEIAHIAVNELMI--LEPNN  243 (331)
Q Consensus       183 ~l~~~~---~~~~~~~~a~~~~~~~---~~~p~~~-~~~-~l~~~-~--~~~~~------~~~a~~~~~~~~~--~~p~~  243 (331)
                      .++..+   .... ...|...+..+   .+.|... ... .++.. +  ...++      ++....++....+  ..|-+
T Consensus       160 ~~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  160 SILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence            444443   4333 34444444331   2333332 111 11111 1  12111      4445555554333  23333


Q ss_pred             cchH---HHH----HHHHHhcCCchHHHHHHHHHH
Q 043124          244 SGYC---TLL----LNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       244 ~~~~---~~l----~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..+-   ..|    +..+.+.++|+.|.+.|+-..
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            3322   222    344667899999999998543

It is also involved in sporulation [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.08  E-value=3.9  Score=36.08  Aligned_cols=76  Identities=13%  Similarity=0.074  Sum_probs=50.5

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVE-PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCM  184 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l  184 (331)
                      .+-..+..++.+.|+.++|.+.|.+|.+.... -.......|+.++...+.+.++..++.+.. +...+.+ ...|+.-
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd-Di~lpkSAti~YTaA  337 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD-DISLPKSATICYTAA  337 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc-cccCCchHHHHHHHH
Confidence            34455777778888899999988888765311 123345568888888888888888888865 3222222 4455543

The molecular function of this protein is uncertain.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.07  E-value=6.5  Score=38.55  Aligned_cols=112  Identities=14%  Similarity=0.046  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHH
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLS  189 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  189 (331)
                      |.+....+...+.+++|.-.|+..-+         ....+.+|...|+|.+|..+..++..  +-.--..+-..|+.-+.
T Consensus       942 ~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~--~~de~~~~a~~L~s~L~ 1010 (1265)
T KOG1920|consen  942 YEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSE--GKDELVILAEELVSRLV 1010 (1265)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcC--CHHHHHHHHHHHHHHHH
Confidence            33344444445555555555544321         12234555666666666666665541  10111122245666666


Q ss_pred             HcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          190 KAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       190 ~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      ..+++-+|-++..+-.-.|..     .+..+++...+++|.++.....
T Consensus      1011 e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1011 EQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHHhcc
Confidence            677777776666654433322     2333455566777766665543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.06  E-value=2.5  Score=33.79  Aligned_cols=57  Identities=16%  Similarity=0.152  Sum_probs=32.7

Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                      .+.+.|.+.|.+..|..-++.|.+.+.-.+ .....-.+..+|...|-.++|.+.-+-
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~v  229 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKV  229 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHH
Confidence            355667777777777777777774321111 123344455667777777666555443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.05  E-value=0.51  Score=31.26  Aligned_cols=63  Identities=13%  Similarity=0.114  Sum_probs=48.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      +.-++.+-++.+...+..|++....+.+++|.+.+++..|.++|+.++.+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            45567777788888888899999999999999999999999999988744432  3446665553

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.03  E-value=0.36  Score=36.87  Aligned_cols=103  Identities=14%  Similarity=0.075  Sum_probs=59.7

Q ss_pred             HHHhccCcHHHHHHHHHhhhhcCCCCCc---HhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcC
Q 043124          150 SACTHAGLVEEGRRRFLSMTCGYSITPE---VEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHR  224 (331)
Q Consensus       150 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~  224 (331)
                      .-+.+.|++++|..-|..........++   ...|..-..++.+.+.++.|++-..+ +.+.|+ ......-..+|.+..
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            3466778888888888877733211111   22344444556677777777665544 344453 222222233466777


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          225 NLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       225 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      .++.|..=+.++++.+|....+-...++
T Consensus       183 k~eealeDyKki~E~dPs~~ear~~i~r  210 (271)
T KOG4234|consen  183 KYEEALEDYKKILESDPSRREAREAIAR  210 (271)
T ss_pred             hHHHHHHHHHHHHHhCcchHHHHHHHHh
Confidence            7788888888877777775544443333

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.00  E-value=0.13  Score=42.56  Aligned_cols=107  Identities=14%  Similarity=0.056  Sum_probs=74.2

Q ss_pred             HHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCcHHHHHHHHHHHhhcCCH
Q 043124          150 SACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS-KF-QPNAVIWGALLGGCKLHRNL  226 (331)
Q Consensus       150 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~  226 (331)
                      ..|.+.|.+++|+..|..-.   .+.| +..++..-..+|.+.+.+..|..-.... .+ ..-...|..-+.+-...|..
T Consensus       105 N~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhH
Confidence            45889999999999999877   2345 7888888889999999998876655542 21 11234455555555567888


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHH
Q 043124          227 EIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEV  263 (331)
Q Consensus       227 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  263 (331)
                      .+|.+=++..+++.|.+...    -..+.+.....++
T Consensus       182 ~EAKkD~E~vL~LEP~~~EL----kK~~a~i~Sl~E~  214 (536)
T KOG4648|consen  182 MEAKKDCETVLALEPKNIEL----KKSLARINSLRER  214 (536)
T ss_pred             HHHHHhHHHHHhhCcccHHH----HHHHHHhcchHhh
Confidence            88888888889999995444    3344444444443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.95  E-value=1.9  Score=31.90  Aligned_cols=109  Identities=16%  Similarity=0.097  Sum_probs=51.8

Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCC-CCcHHHHHHHHHHHhhcCCHHHHHH
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKF-QPNAVIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~  231 (331)
                      .+.++.+.+..++..+.--..-.+...++..  ..+...|++.+|..+|+++.- .|.......|+..|....+-..=..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~Wr~   98 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSWRR   98 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHHHH
Confidence            4556777777777776621111122333332  335677777777777776542 2333333334433333222222223


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHH
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTK  265 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  265 (331)
                      +.+++++..++ +.. ..|+..+....+...|..
T Consensus        99 ~A~evle~~~d-~~a-~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   99 YADEVLESGAD-PDA-RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHhcCCC-hHH-HHHHHHHHHhccccchhh
Confidence            33344444443 434 345555555555555444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.93  E-value=3.6  Score=35.09  Aligned_cols=236  Identities=11%  Similarity=0.028  Sum_probs=121.1

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCC---C-CchhHHHHHHHHHHh
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGF---D-IDVYIGSALVDMYAK   88 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~-~~~~~~~~l~~~~~~   88 (331)
                      ..+.-+.|+++...+........  .++...+..+...  ..++.+++....+.+...-.   . .....|........+
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~   80 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVK   80 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            45677888998855555444432  2344455444433  77888888888877654311   0 011222222222333


Q ss_pred             hCC---HHHHHHHHhhcCCCChh-------hHHHHHHHHHhCCC---HHHHHHHHHHHHH--cCCCCcHHHHHHHHHHHh
Q 043124           89 CGS---LDRSLLVFFKLREKNLF-------CWNSIIEGLAVHGF---AHEALAMFDRMIY--ENVEPNGVTFISVLSACT  153 (331)
Q Consensus        89 ~g~---~~~a~~~~~~~~~~~~~-------~~~~li~~~~~~~~---~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~  153 (331)
                      ...   ++++.++....... ..       .|..-+...  ..+   ++..+.+-..+..  ........++..++..+.
T Consensus        81 lq~L~Elee~~~~~~~~~~~-~~~~~~l~~~W~~Rl~~~--~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aR  157 (352)
T PF02259_consen   81 LQQLVELEEIIELKSNLSQN-PQDLKSLLKRWRSRLPNM--QDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLAR  157 (352)
T ss_pred             HhHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHHh--ccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Confidence            333   33333333222110 11       222222111  111   2222222222222  112344567778888888


Q ss_pred             ccCcHHHHHHHHHhhhhcCCCCC---cHhHHHHHHHHHHHcCCHHHHHHHHHhCC---CCC-------------------
Q 043124          154 HAGLVEEGRRRFLSMTCGYSITP---EVEHYGCMVDLLSKAGLLEDALELIRSSK---FQP-------------------  208 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~p-------------------  208 (331)
                      +.|.++.|...+..+. ..+...   .+.....-++.+-..|+..+|+..+++.-   ...                   
T Consensus       158 k~g~~~~A~~~l~~~~-~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (352)
T PF02259_consen  158 KAGNFQLALSALNRLF-QLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISNAELKSGLLESLE  236 (352)
T ss_pred             HCCCcHHHHHHHHHHh-ccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccHHHHhhccccccc
Confidence            8999999988888877 322111   23344445667778888888877765321   000                   


Q ss_pred             -------cH-------HHHHHHHHHHhhc------CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 043124          209 -------NA-------VIWGALLGGCKLH------RNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       209 -------~~-------~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  256 (331)
                             +.       ..+..+..-+...      ++.+.+...|+.+....|.....|..+...+.+
T Consensus       237 ~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~  304 (352)
T PF02259_consen  237 VISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFNDK  304 (352)
T ss_pred             cccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHH
Confidence                   00       1122222222233      677888888888888888777776666665544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.92  E-value=2.5  Score=33.32  Aligned_cols=53  Identities=6%  Similarity=-0.198  Sum_probs=30.1

Q ss_pred             HhhcCCHHHHHHHHHHHHhcCCCCcch-------HHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          220 CKLHRNLEIAHIAVNELMILEPNNSGY-------CTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~p~~~~~-------~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      -+..+++.+|.++|++.....-++...       +..-+.++.-..+.-.+...+++..+
T Consensus       164 aa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~  223 (288)
T KOG1586|consen  164 AAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQE  223 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHh
Confidence            467789999999999987744333221       11112222223455556666666554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.88  E-value=5.4  Score=39.05  Aligned_cols=79  Identities=19%  Similarity=0.140  Sum_probs=38.2

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH--HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVT--FISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA  191 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  191 (331)
                      +.+|...|+|.+|+.+-.++...   -+...  -..|+.-+...+++-+|-++..+.. .   .     ..--+..||+.
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~-s---d-----~~~av~ll~ka 1039 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYL-S---D-----PEEAVALLCKA 1039 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHh-c---C-----HHHHHHHHhhH
Confidence            34455555555555555444211   11111  1335555556666666666655554 1   1     12233445666


Q ss_pred             CCHHHHHHHHHhC
Q 043124          192 GLLEDALELIRSS  204 (331)
Q Consensus       192 ~~~~~a~~~~~~~  204 (331)
                      ..+++|+.+....
T Consensus      1040 ~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1040 KEWEEALRVASKA 1052 (1265)
T ss_pred             hHHHHHHHHHHhc
Confidence            6666666665543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.78  E-value=5.7  Score=36.88  Aligned_cols=103  Identities=12%  Similarity=-0.052  Sum_probs=75.8

Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      ++.+.+..+++..-...+.+--+.-+...|+-.+|.++-.+.+ -||...|..-+.+++..+++++-+++-+....    
T Consensus       669 ~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-ipdKr~~wLk~~aLa~~~kweeLekfAkskks----  743 (829)
T KOG2280|consen  669 KLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-IPDKRLWWLKLTALADIKKWEELEKFAKSKKS----  743 (829)
T ss_pred             HHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC----
Confidence            3334444444444444455556667788899999999888887 58888998899999999999987776654422    


Q ss_pred             CcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          243 NSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       243 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                       +.-|.-...+|.+.|+.++|..++-+..
T Consensus       744 -PIGy~PFVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  744 -PIGYLPFVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             -CCCchhHHHHHHhcccHHHHhhhhhccC
Confidence             4456778899999999999999987653

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.76  E-value=0.57  Score=33.95  Aligned_cols=55  Identities=15%  Similarity=0.054  Sum_probs=31.1

Q ss_pred             HcCCHHHHHHHHHhCC-CCCcHHHHHHHH-HHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          190 KAGLLEDALELIRSSK-FQPNAVIWGALL-GGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       190 ~~~~~~~a~~~~~~~~-~~p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      ..++++++..++..+. +.|+..-...+- ..+...|++++|.++|++..+..|..+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p   78 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPP   78 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCch
Confidence            4667777777766653 344432222221 124567777777777777766555533

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=93.71  E-value=2.2  Score=31.91  Aligned_cols=132  Identities=14%  Similarity=0.034  Sum_probs=73.7

Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC--CHHHHHHHHhhcC
Q 043124           26 LDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG--SLDRSLLVFFKLR  103 (331)
Q Consensus        26 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~  103 (331)
                      .+.++.+.+.+++|+...+..++..+.+.|.+...    .+++..++-+|.......+-.+....  -..-|.+++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            45556666778888888888888888888876443    34455555555554443332222211  1233444444443


Q ss_pred             CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          104 EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       104 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                          ..+..++..+...|++-+|++..+.....+ .++.   ..++.+..+.+|...=..+|+-..
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~~-~~~~---~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKVD-SVPA---RKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcc-cCCH---HHHHHHHHHcCCHHHHHHHHHHHH
Confidence                245566677777888888888776643321 1122   234555555665554444444443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.69  E-value=3.6  Score=34.26  Aligned_cols=126  Identities=15%  Similarity=0.175  Sum_probs=78.4

Q ss_pred             hhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc--c----CCchHHHHHHHHHHHhCC---CCchhHHHHHHHHHHhhCC-
Q 043124           22 FREALDAFNEMKNSGISPDQVTMATVLSACAH--L----GALDLGREIHLYVMQIGF---DIDVYIGSALVDMYAKCGS-   91 (331)
Q Consensus        22 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~--~----~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~-   91 (331)
                      +++.+.+++.|.+.|.+-+..+|-+.......  .    ....++..+++.|++...   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45677889999999998887777654443332  2    235678899999988642   2344455555433  3333 


Q ss_pred             ---HHHHHHHHhhcCC-----CCh-hhHHHHHHHHHhCCC--HHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 043124           92 ---LDRSLLVFFKLRE-----KNL-FCWNSIIEGLAVHGF--AHEALAMFDRMIYENVEPNGVTFISVL  149 (331)
Q Consensus        92 ---~~~a~~~~~~~~~-----~~~-~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~ll  149 (331)
                         .+.++.+|+.+.+     .|. .....++...-....  ...+.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence               3456666666654     232 333333333322222  458899999999999998888777554

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.68  E-value=5.1  Score=36.07  Aligned_cols=181  Identities=15%  Similarity=0.117  Sum_probs=127.1

Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLREKNL---FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA  151 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  151 (331)
                      +..+|+..++.-.+.|+.+.+.-.|++..-|-.   ..|-..+......|+.+-|..++....+--++-++.+-..-...
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            467888889999999999999999999887633   45666667677779999999988887776544444443333334


Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcH-hHHHHHHHHHHHcCCHHHHH---HHHHhCC---CCCcH--HHHHHHHHH-Hh
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEV-EHYGCMVDLLSKAGLLEDAL---ELIRSSK---FQPNA--VIWGALLGG-CK  221 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~---~~~~~~~---~~p~~--~~~~~l~~~-~~  221 (331)
                      +-..|+++.|..+++.+..+.   |+. ..-..-+....+.|+.+.+.   .++....   ..+..  ..+....+- +.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            556789999999999999443   542 22222344566788888887   4444321   22221  122222222 45


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          222 LHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      -.++.+.|..++.++....|++...|..+++.....+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            6789999999999999999999999999988877766

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.44  E-value=0.16  Score=26.45  Aligned_cols=31  Identities=10%  Similarity=0.253  Sum_probs=17.9

Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhhCCHHHHH
Q 043124           65 LYVMQIGFDIDVYIGSALVDMYAKCGSLDRSL   96 (331)
Q Consensus        65 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~   96 (331)
                      ++.++.. |-+..+|+.+..+|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444443 335666666666666666666664

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.31  E-value=3.2  Score=37.46  Aligned_cols=150  Identities=15%  Similarity=0.057  Sum_probs=83.6

Q ss_pred             HhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFL  166 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  166 (331)
                      .-.|+++.|..++..+.+   ...+.++..+-+.|..++|+++         .+|+...   .....+.|+.+.|.++..
T Consensus       597 vmrrd~~~a~~vLp~I~k---~~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~  661 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPK---EIRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAV  661 (794)
T ss_pred             hhhccccccccccccCch---hhhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHH
Confidence            345666666665555542   2344455556666666666543         2222211   122345677777777665


Q ss_pred             hhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          167 SMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       167 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      +..       +..-|..|..+....+++..|.++|.+..      -|..|+-.+...|+-+....+-....+.+.++.. 
T Consensus       662 e~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N~A-  727 (794)
T KOG0276|consen  662 EAN-------SEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNNLA-  727 (794)
T ss_pred             hhc-------chHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccchH-
Confidence            544       44567777777777788877777777543      1233444555556655554554444444444222 


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHH
Q 043124          247 CTLLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       247 ~~~l~~~~~~~g~~~~a~~~~~~  269 (331)
                          ..+|...|+++++.+++.+
T Consensus       728 ----F~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  728 ----FLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             ----HHHHHHcCCHHHHHHHHHh
Confidence                2355566777766666654

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.18  E-value=5.7  Score=35.12  Aligned_cols=98  Identities=12%  Similarity=0.141  Sum_probs=66.4

Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-C-CCc--HHHHHHHHHHHh
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-F-QPN--AVIWGALLGGCK  221 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~-~p~--~~~~~~l~~~~~  221 (331)
                      ..+..++-+.|+.++|++.++++.+.............|+.++...+.+.++..++.+-. + -|.  ...|+..+--+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            346667778999999999999998555333345677889999999999999999988643 1 233  345555443333


Q ss_pred             hcCC---------------HHHHHHHHHHHHhcCCCC
Q 043124          222 LHRN---------------LEIAHIAVNELMILEPNN  243 (331)
Q Consensus       222 ~~~~---------------~~~a~~~~~~~~~~~p~~  243 (331)
                      ..++               -..|.+.+.++.+.+|-.
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHV  379 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHV  379 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCC
Confidence            2222               123557777877766653

The molecular function of this protein is uncertain.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.16  E-value=2.8  Score=31.40  Aligned_cols=137  Identities=9%  Similarity=0.081  Sum_probs=86.7

Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc--CCHHHHHHHHHhC
Q 043124          127 LAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA--GLLEDALELIRSS  204 (331)
Q Consensus       127 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~  204 (331)
                      .+.++.+.+.|++|+...+..++..+.+.|.+..-.+++.     +++-+|.......+-.+...  .-..-|++.+.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq-----~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQ-----YHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHh-----hcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHh
Confidence            4556666777888998999999999999998765444433     34455544333333222221  1134456667776


Q ss_pred             CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          205 KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       205 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      +.     .+..++..+...|++-+|.++.+.....+.  ... ..++++-...++...-..+++-+.+++.+
T Consensus        89 ~~-----~~~~iievLL~~g~vl~ALr~ar~~~~~~~--~~~-~~fLeAA~~~~D~~lf~~V~~ff~~~n~~  152 (167)
T PF07035_consen   89 GT-----AYEEIIEVLLSKGQVLEALRYARQYHKVDS--VPA-RKFLEAAANSNDDQLFYAVFRFFEERNLR  152 (167)
T ss_pred             hh-----hHHHHHHHHHhCCCHHHHHHHHHHcCCccc--CCH-HHHHHHHHHcCCHHHHHHHHHHHHHhhHh
Confidence            62     334566778889999999998877644321  122 45677777888877777777777665543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.99  E-value=0.3  Score=26.50  Aligned_cols=27  Identities=15%  Similarity=0.083  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      +++.|...|...|++++|..++++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            445555555555555555555555544

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=92.89  E-value=2  Score=33.03  Aligned_cols=67  Identities=10%  Similarity=-0.049  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC-------CCChhhHHHHHHHHHhCCCHHHH
Q 043124           59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR-------EKNLFCWNSIIEGLAVHGFAHEA  126 (331)
Q Consensus        59 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a  126 (331)
                      .|.+.|-++...+.-.++.....|...|. ..+.+++..++.+..       +.|+..+..|++.+.+.|+++.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            45555555555444444444444544444 345555555554332       23455666666666666666555

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.72  E-value=0.29  Score=24.87  Aligned_cols=27  Identities=15%  Similarity=0.005  Sum_probs=15.7

Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          216 LLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       216 l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      +..++.+.|++++|.+.|+++++..|+
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            444455566666666666666665554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.36  E-value=4  Score=31.25  Aligned_cols=85  Identities=11%  Similarity=0.010  Sum_probs=38.6

Q ss_pred             HHhccCcHHHHHHHHHhhhhcCCCCCcHhHHH-----HHHHHHHHcCCHHHHHHHHHhCCCCCcHHH--HHHHHHHHhhc
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGYSITPEVEHYG-----CMVDLLSKAGLLEDALELIRSSKFQPNAVI--WGALLGGCKLH  223 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~--~~~l~~~~~~~  223 (331)
                      .+...|++++|...++... ..  +.| ..+.     .|.+.....|.+++|+..++... .++-..  ...-..++...
T Consensus        98 ~~ve~~~~d~A~aqL~~~l-~~--t~D-e~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDill~k  172 (207)
T COG2976          98 AEVEANNLDKAEAQLKQAL-AQ--TKD-ENLKALAALRLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDILLAK  172 (207)
T ss_pred             HHHhhccHHHHHHHHHHHH-cc--chh-HHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhHHHHc
Confidence            4455566666666665554 11  111 1111     22334445556666665555443 121111  11222235555


Q ss_pred             CCHHHHHHHHHHHHhcC
Q 043124          224 RNLEIAHIAVNELMILE  240 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~  240 (331)
                      |+-++|..-|++++...
T Consensus       173 g~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         173 GDKQEARAAYEKALESD  189 (207)
T ss_pred             CchHHHHHHHHHHHHcc
Confidence            66666666665555544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.26  E-value=1.4  Score=29.30  Aligned_cols=62  Identities=15%  Similarity=0.167  Sum_probs=44.5

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124           21 QFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus        21 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      +.-++.+-++.+....+.|++....+.+++|.+.+|+..|.++++-.+... ..+...|..++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~l   83 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYIL   83 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHH
Confidence            445677777777777888888888888888888888888888888766432 22344555544

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=92.22  E-value=9.2  Score=35.09  Aligned_cols=169  Identities=13%  Similarity=0.050  Sum_probs=86.9

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCC-HhhHHH-----HHHHHHccCCchHHHHHHHHHHH--hCC-CCchhHHHHH
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPD-QVTMAT-----VLSACAHLGALDLGREIHLYVMQ--IGF-DIDVYIGSAL   82 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~--~~~-~~~~~~~~~l   82 (331)
                      +...|+-.|+|.+|-++|.+-   |.... ...|+-     ...-+...|+.++-..+.++-.+  ..+ +|.     +-
T Consensus       638 lA~~~Ay~gKF~EAAklFk~~---G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePk-----aA  709 (1081)
T KOG1538|consen  638 LADVFAYQGKFHEAAKLFKRS---GHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPK-----AA  709 (1081)
T ss_pred             HHHHHHhhhhHHHHHHHHHHc---CchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcH-----HH
Confidence            346677788888888888653   22211 111111     11223334444433333322111  011 221     23


Q ss_pred             HHHHHhhCCHHHHHHHH-------------hhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVF-------------FKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVL  149 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~-------------~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  149 (331)
                      ...+..+|+.++|..+.             +++...+..+...+...+.+...+.-|-++|.+|-+.         ..++
T Consensus       710 AEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiV  780 (1081)
T KOG1538|consen  710 AEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLV  780 (1081)
T ss_pred             HHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHh
Confidence            44555666666665543             3333334555666666666667777788888776432         2356


Q ss_pred             HHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHH
Q 043124          150 SACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIR  202 (331)
Q Consensus       150 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  202 (331)
                      ..+...++|++|+.+-+... +  +.|++  |-...+-++...++++|.+.|.
T Consensus       781 qlHve~~~W~eAFalAe~hP-e--~~~dV--y~pyaqwLAE~DrFeEAqkAfh  828 (1081)
T KOG1538|consen  781 QLHVETQRWDEAFALAEKHP-E--FKDDV--YMPYAQWLAENDRFEEAQKAFH  828 (1081)
T ss_pred             hheeecccchHhHhhhhhCc-c--ccccc--cchHHHHhhhhhhHHHHHHHHH
Confidence            67778888888888877766 2  24442  3333344444444444444443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.10  E-value=4  Score=30.65  Aligned_cols=118  Identities=9%  Similarity=-0.003  Sum_probs=54.8

Q ss_pred             ccCCchHHHHHHHHHHHhCCCCchh-HHHHHHHHHHhhCCHHHHHHHHhhcCCCCh--hhH-----HHHHHHHHhCCCHH
Q 043124           53 HLGALDLGREIHLYVMQIGFDIDVY-IGSALVDMYAKCGSLDRSLLVFFKLREKNL--FCW-----NSIIEGLAVHGFAH  124 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~-----~~li~~~~~~~~~~  124 (331)
                      +.+..++|+.-|..+.+.|...-+. ..--........|+...|...|.++...+.  ...     ---.-.+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            4455566666666665554431111 111122334455666666666665543211  111     11122344455555


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhh
Q 043124          125 EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTC  170 (331)
Q Consensus       125 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  170 (331)
                      .+..-.+-+-..+-+.-...-..|.-+-.+.|++..|.+.|..+..
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            5555555544433333333334444455556666666666666553

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=91.91  E-value=9.4  Score=34.51  Aligned_cols=96  Identities=7%  Similarity=0.058  Sum_probs=54.4

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC-CCCcchHHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE-PNNSGYCTLLLNMY  254 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~  254 (331)
                      ..+|...+..-...|+++.+.-+++...  +..-...|-..+.-....|+.+.|..++.+..+.. |..+.....-....
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~  376 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFE  376 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHH
Confidence            4566666666667777777776666532  22223334344444444477777777776666633 44444432223334


Q ss_pred             HhcCCchHHHHHHHHHHhc
Q 043124          255 AEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       255 ~~~g~~~~a~~~~~~m~~~  273 (331)
                      -..|++..|..+++.+.+.
T Consensus       377 e~~~n~~~A~~~lq~i~~e  395 (577)
T KOG1258|consen  377 ESNGNFDDAKVILQRIESE  395 (577)
T ss_pred             HhhccHHHHHHHHHHHHhh
Confidence            4456777887777777654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.74  E-value=1.7  Score=29.26  Aligned_cols=60  Identities=15%  Similarity=0.186  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124           24 EALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus        24 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +..+-++.+....+.|++....+.+.+|.+.+++..|.++++-++... .+....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            566677777777888888888888888888888888888888776652 333336666554

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=91.52  E-value=0.55  Score=25.37  Aligned_cols=28  Identities=18%  Similarity=0.391  Sum_probs=17.5

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKN   34 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~   34 (331)
                      .+++.|...|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4566666666677777777666666543

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.51  E-value=0.1  Score=38.09  Aligned_cols=129  Identities=12%  Similarity=0.110  Sum_probs=79.2

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHH
Q 043124           46 TVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHE  125 (331)
Q Consensus        46 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  125 (331)
                      .++..+.+.+.+.....+++.+...+...+...++.++..|++.++.++.+++++....   .-...++..|.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            35667777888888889999888776566788889999999999887888877773332   333456666667777777


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC
Q 043124          126 ALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL  193 (331)
Q Consensus       126 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  193 (331)
                      |.-++.++....-         .+..+...++++.|.++..+.       ++...|..+++.+...+.
T Consensus        89 a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~~-------~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   89 AVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKKV-------DDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGGC-------SSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHhc-------CcHHHHHHHHHHHHhcCc
Confidence            7776666432211         111133444555555322222       235566666666655443

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.42  E-value=5.2  Score=30.64  Aligned_cols=53  Identities=15%  Similarity=0.107  Sum_probs=25.2

Q ss_pred             HHHHhhCCHHHHHHHHhhcCCCChh--hHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124           84 DMYAKCGSLDRSLLVFFKLREKNLF--CWNSIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      +.....|.+|+|+.+++....++-.  ....-...+...|+-++|..-|++.++.
T Consensus       134 rvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         134 RVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence            3444455555555555555444222  2333344455555555555555555544

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.38  E-value=0.61  Score=23.95  Aligned_cols=28  Identities=18%  Similarity=0.309  Sum_probs=16.5

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNS   35 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~   35 (331)
                      +|..+...|...|++++|+..|++..+.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            4555666666666666666666666553

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 ....

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.17  E-value=1.2  Score=36.24  Aligned_cols=154  Identities=14%  Similarity=0.105  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHh-------hhhc------------------CCCCCc
Q 043124          123 AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLS-------MTCG------------------YSITPE  177 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~-------~~~~------------------~~~~~~  177 (331)
                      -.+|+++|.-+.+..  --..+-+.++.++-...+..+|...+..       +...                  .++..|
T Consensus       149 s~KA~ELFayLv~hk--gk~v~~~~~ie~lwpe~D~kka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~D  226 (361)
T COG3947         149 SRKALELFAYLVEHK--GKEVTSWEAIEALWPEKDEKKASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYD  226 (361)
T ss_pred             hhHHHHHHHHHHHhc--CCcccHhHHHHHHccccchhhHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCcccc
Confidence            357888888777653  1223334456666666665555544432       2210                  123345


Q ss_pred             HhHHHHHHHHHHH-cCCHHHHHHHHHhC-C-C--------CCcH-----H----HHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          178 VEHYGCMVDLLSK-AGLLEDALELIRSS-K-F--------QPNA-----V----IWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       178 ~~~~~~l~~~~~~-~~~~~~a~~~~~~~-~-~--------~p~~-----~----~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      ..-|...+.-.-+ +-.++++.++...- | .        .-|.     .    +++...+.|...|.+.+|.++.++++
T Consensus       227 v~e~es~~rqi~~inltide~kelv~~ykgdyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~l  306 (361)
T COG3947         227 VQEYESLARQIEAINLTIDELKELVGQYKGDYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRAL  306 (361)
T ss_pred             HHHHHHHhhhhhccccCHHHHHHHHHHhcCCcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            5556555554332 34466666665543 1 1        1111     2    23444556899999999999999999


Q ss_pred             hcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH-----hcCCCCC
Q 043124          238 ILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK-----ELGIEKR  278 (331)
Q Consensus       238 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~  278 (331)
                      ..+|-+...+..|+..+...|+--.|..-++++.     +.|+..+
T Consensus       307 tldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vd  352 (361)
T COG3947         307 TLDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVD  352 (361)
T ss_pred             hcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcc
Confidence            9999999999999999999999878877777663     3455544

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=90.98  E-value=3.4  Score=27.72  Aligned_cols=88  Identities=16%  Similarity=0.164  Sum_probs=61.7

Q ss_pred             CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 043124           56 ALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIY  135 (331)
Q Consensus        56 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  135 (331)
                      ..++|..+-+.+...+-. ...+--+-+..+.+.|++++|..+.+.+.-||...|-+|-.  .+.|..+++..-+.+|..
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHh
Confidence            456777777776665422 23333334556788899999999999988889888887744  567888888888888887


Q ss_pred             cCCCCcHHHHHH
Q 043124          136 ENVEPNGVTFIS  147 (331)
Q Consensus       136 ~~~~p~~~~~~~  147 (331)
                      .| .|....|..
T Consensus        97 sg-~p~lq~Faa  107 (115)
T TIGR02508        97 SG-DPRLQTFVA  107 (115)
T ss_pred             CC-CHHHHHHHH
Confidence            76 566666543

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.91  E-value=0.46  Score=24.32  Aligned_cols=29  Identities=17%  Similarity=0.123  Sum_probs=24.5

Q ss_pred             chHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          245 GYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       245 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+..++..+...|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            35678999999999999999999998764

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.35  E-value=3.3  Score=34.22  Aligned_cols=99  Identities=16%  Similarity=0.197  Sum_probs=71.9

Q ss_pred             CCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-Ch-----hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Q 043124           71 GFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-NL-----FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVT  144 (331)
Q Consensus        71 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  144 (331)
                      |.+....+...++..-....+++.++..+-+++.. +.     .+-.+.++.+. .-++++++-++..=++.|+-||..+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchhh
Confidence            44445555666666666678899998888777642 11     12222333333 3467789988888889999999999


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHhhhh
Q 043124          145 FISVLSACTHAGLVEEGRRRFLSMTC  170 (331)
Q Consensus       145 ~~~ll~~~~~~~~~~~a~~~~~~~~~  170 (331)
                      ++.++..+.+.+++.+|.++...|..
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            99999999999999999888887773

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.34  E-value=7  Score=30.20  Aligned_cols=93  Identities=14%  Similarity=0.089  Sum_probs=58.2

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcH-----HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHH
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNG-----VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDL  187 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~  187 (331)
                      ..-+...|++++|..-|.+.++. +++..     ..|..-..++.+.+.++.|+.--.... .  +.|+ ......-..+
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKai-e--l~pty~kAl~RRAea  177 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAI-E--LNPTYEKALERRAEA  177 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhH-h--cCchhHHHHHHHHHH
Confidence            45577888888888888888876 34332     233333456677788888887766666 2  2332 2222233446


Q ss_pred             HHHcCCHHHHHHHHHhCC-CCCcH
Q 043124          188 LSKAGLLEDALELIRSSK-FQPNA  210 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~~~-~~p~~  210 (331)
                      |-+...+++|++=++++. ..|..
T Consensus       178 yek~ek~eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  178 YEKMEKYEEALEDYKKILESDPSR  201 (271)
T ss_pred             HHhhhhHHHHHHHHHHHHHhCcch
Confidence            777788888888777653 44543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.16  E-value=5.7  Score=28.96  Aligned_cols=64  Identities=6%  Similarity=-0.081  Sum_probs=35.0

Q ss_pred             ccCCchHHHHHHHHHHHhCCCCch-hHHHHHHHHHHhhCCHHHHHHHHhhcCCCCh-hhHHHHHHHHH
Q 043124           53 HLGALDLGREIHLYVMQIGFDIDV-YIGSALVDMYAKCGSLDRSLLVFFKLREKNL-FCWNSIIEGLA  118 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~li~~~~  118 (331)
                      ..++.+.+..+++.+.-..  |+. ..-..-...+...|++++|..+|+++.+... ..|..-+.++|
T Consensus        22 ~~~d~~D~e~lLdALrvLr--P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~C   87 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLR--PNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALC   87 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhC--CCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHH
Confidence            4667777777776665542  222 2222223445667777777777777765432 24444333333

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=90.08  E-value=6.3  Score=30.43  Aligned_cols=73  Identities=15%  Similarity=-0.030  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC--CCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          124 HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGY--SITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       124 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      +.|.+.|-++...+.--++.... .+..|....+.+++.+++....+..  +-.+|+..+.+|+..+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~-aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQY-ALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHH-HHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            34555555554444322222222 2223333445555555555444211  1133445555555555555555544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.94  E-value=11  Score=32.01  Aligned_cols=185  Identities=16%  Similarity=-0.015  Sum_probs=92.4

Q ss_pred             HHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC--------ChhhHHHHHHHHHh
Q 043124           48 LSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK--------NLFCWNSIIEGLAV  119 (331)
Q Consensus        48 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~li~~~~~  119 (331)
                      ..+..+.|+++...+........  .++...+.++...  +.|+.+++....+.....        ....|......+.+
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~   80 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVK   80 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            45667888888855544433321  2344555554433  788899888887766531        22233333333333


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc-----cCc---HHHHHHHHHhhhhc-CCCCCcHhHHHHHHHHHHH
Q 043124          120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH-----AGL---VEEGRRRFLSMTCG-YSITPEVEHYGCMVDLLSK  190 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-----~~~---~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~  190 (331)
                      .....+..++.+-.....  .+......++.....     .++   ++....+-..+... ........+|..+++.+.+
T Consensus        81 lq~L~Elee~~~~~~~~~--~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk  158 (352)
T PF02259_consen   81 LQQLVELEEIIELKSNLS--QNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARK  158 (352)
T ss_pred             HhHHHHHHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHH
Confidence            333333333333221110  001111111111110     111   22222222222210 0123345678888888888


Q ss_pred             cCCHHHHHHHHHhCCCCC------cHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          191 AGLLEDALELIRSSKFQP------NAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       191 ~~~~~~a~~~~~~~~~~p------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .|.++.|...+.++.-..      .......-++.+-..|+..+|...++..+.
T Consensus       159 ~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  159 AGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             CCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999888877653211      333444445556777888888888887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.88  E-value=1.5  Score=36.53  Aligned_cols=88  Identities=14%  Similarity=0.020  Sum_probs=60.4

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcC
Q 043124          113 IIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAG  192 (331)
Q Consensus       113 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  192 (331)
                      -.+-|.+.|.+++|+..|....... +-+.+++..-..+|.+...+..|+.--+....     .|    ...+++|.+.+
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia-----Ld----~~Y~KAYSRR~  172 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIA-----LD----KLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHH-----hh----HHHHHHHHHHH
Confidence            3457899999999999999987753 33889998888999999999888776666551     11    23455555554


Q ss_pred             -------CHHHHHHHHHh-CCCCCcH
Q 043124          193 -------LLEDALELIRS-SKFQPNA  210 (331)
Q Consensus       193 -------~~~~a~~~~~~-~~~~p~~  210 (331)
                             ...+|.+-++. +.+.|+.
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPKN  198 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCccc
Confidence                   44444444433 3466763

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=89.75  E-value=10  Score=31.11  Aligned_cols=53  Identities=11%  Similarity=0.197  Sum_probs=36.4

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHhh-------HHHHHHHHHccCCchHHHHHH
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPDQVT-------MATVLSACAHLGALDLGREIH   64 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-------~~~l~~~~~~~~~~~~a~~~~   64 (331)
                      +.+...+.+++++|+..|.+....|+..|..+       ...+...|...|+...-.+..
T Consensus         9 ~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i   68 (421)
T COG5159           9 LANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTI   68 (421)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHH
Confidence            45566677888888888888888887776644       334556677777766555554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.61  E-value=9.6  Score=31.66  Aligned_cols=92  Identities=10%  Similarity=0.069  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcC---CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYEN---VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMV  185 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  185 (331)
                      +...++..-....+++.+...+-++...-   ..|+...+ ++++.|.+ -+.++++.++..=. .+|+-||..+++.+|
T Consensus        66 ~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npI-qYGiF~dqf~~c~l~  142 (418)
T KOG4570|consen   66 TVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPI-QYGIFPDQFTFCLLM  142 (418)
T ss_pred             ehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcc-hhccccchhhHHHHH
Confidence            34444444444566777777776665431   12222222 23333333 35557777777766 678888888888888


Q ss_pred             HHHHHcCCHHHHHHHHHh
Q 043124          186 DLLSKAGLLEDALELIRS  203 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~~  203 (331)
                      +.+.+.+++.+|..+...
T Consensus       143 D~flk~~n~~~aa~vvt~  160 (418)
T KOG4570|consen  143 DSFLKKENYKDAASVVTE  160 (418)
T ss_pred             HHHHhcccHHHHHHHHHH
Confidence            888888888777766554

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.60  E-value=15  Score=32.85  Aligned_cols=177  Identities=9%  Similarity=0.033  Sum_probs=119.7

Q ss_pred             CCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 043124           73 DIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE--KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLS  150 (331)
Q Consensus        73 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  150 (331)
                      +.|.....+++..+.....+.-++.+-.+|..  .+-..|..++.+|... ..+.-..+|+++.+..+  +...+.--+.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~df--nDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF--NDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc--hhHHHHHHHH
Confidence            34666677888888888888888888888764  4567888899999888 67778889998888753  4344443444


Q ss_pred             HHhccCcHHHHHHHHHhhhhcCCCCCc------HhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCcHHHHHHHHHHH
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGYSITPE------VEHYGCMVDLLSKAGLLEDALELIRSS----KFQPNAVIWGALLGGC  220 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p~~~~~~~l~~~~  220 (331)
                      .+...++.+.+...|..+..  .+-|-      ...|..|...  -..+.+..+.+..++    +..--...+.-+-.-|
T Consensus       140 ~~yEkik~sk~a~~f~Ka~y--rfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         140 DKYEKIKKSKAAEFFGKALY--RFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHhchhhHHHHHHHHHH--HhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            44455888888888888772  22331      2244444422  134556655555443    3333445555566668


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  256 (331)
                      ....++++|.+++..+++.+..+..+...++.-+..
T Consensus       216 s~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lRd  251 (711)
T COG1747         216 SENENWTEAIRILKHILEHDEKDVWARKEIIENLRD  251 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHHH
Confidence            888999999999999988777777776667666544

>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=89.51  E-value=0.54  Score=22.63  Aligned_cols=22  Identities=9%  Similarity=-0.077  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhcCCchHHHHHHH
Q 043124          247 CTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       247 ~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      ...+..++...|++++|..+++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHh
Confidence            3456667777777777776654

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

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=89.29  E-value=34  Score=36.68  Aligned_cols=66  Identities=8%  Similarity=-0.055  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCC
Q 043124          210 AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEK  277 (331)
Q Consensus       210 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  277 (331)
                      ..+|....+.....|.++.|...+-.+.+..+  +..+...+..+...|+...|+.++++..+...+.
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~~ 1735 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNFPD 1735 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhccc
Confidence            46788888888889999999998888877663  4466778999999999999999999998766543

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=89.29  E-value=1.3  Score=35.01  Aligned_cols=84  Identities=18%  Similarity=0.114  Sum_probs=50.3

Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcH-hHHHHHHHHHHHcCCHHHHHHH-HHhCCCCCcHHHHHHHHHH-HhhcCCHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEV-EHYGCMVDLLSKAGLLEDALEL-IRSSKFQPNAVIWGALLGG-CKLHRNLEI  228 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~p~~~~~~~l~~~-~~~~~~~~~  228 (331)
                      |.....++.|+..|.+..   -+.|+. .-|..-+.++.+..+++.+..- .+.+.+.||..--...+.. +.....++.
T Consensus        20 ~f~~k~y~~ai~~y~raI---~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~e   96 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAI---CINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDE   96 (284)
T ss_pred             ccchhhhchHHHHHHHHH---hcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccH
Confidence            445566777777666666   335554 3445556666667777766443 3345566665544444444 556667777


Q ss_pred             HHHHHHHHHh
Q 043124          229 AHIAVNELMI  238 (331)
Q Consensus       229 a~~~~~~~~~  238 (331)
                      |+..++++..
T Consensus        97 aI~~Lqra~s  106 (284)
T KOG4642|consen   97 AIKVLQRAYS  106 (284)
T ss_pred             HHHHHHHHHH
Confidence            7777777755

>PRK10941 hypothetical protein; Provisional

Probab=89.29  E-value=3.4  Score=33.77  Aligned_cols=61  Identities=15%  Similarity=0.051  Sum_probs=54.5

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          213 WGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       213 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .+.+-.+|.+.++++.|.++.+.++.+.|+++.-+.--+..|.+.|.+..|..=++...+.
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~  244 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQ  244 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHh
Confidence            4556667899999999999999999999999988888899999999999999999988754

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.24  E-value=2.5  Score=32.97  Aligned_cols=77  Identities=10%  Similarity=-0.007  Sum_probs=47.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc-CCCCCcHhHHHHHHHH
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG-YSITPEVEHYGCMVDL  187 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~  187 (331)
                      .+.-++.+.+.+...+++...++-++.+ |.+..+-..++..++-.|+|++|..-++-.-+- -...+...+|..+|.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4455667777777888888777766653 445555566777778888888887766665410 1122334555555543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.83  E-value=2.1  Score=33.40  Aligned_cols=63  Identities=24%  Similarity=0.172  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          181 YGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       181 ~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      .+..+..+.+.+.+.+++...++ .+.+|. ..+-..++..++-.|++++|..-++-.-.+.|..
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~   68 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQD   68 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCccc
Confidence            44456677788888888877764 455564 4444556667888888888888887777777763

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=88.72  E-value=2.5  Score=24.66  Aligned_cols=32  Identities=25%  Similarity=0.189  Sum_probs=25.9

Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          215 ALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       215 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      .+.-++.+.|++++|.+..+.+++..|++..+
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa   37 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQA   37 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence            45557889999999999999999999998766

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=88.44  E-value=18  Score=32.35  Aligned_cols=173  Identities=15%  Similarity=0.141  Sum_probs=115.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      ...-+++..+..+..+.-...+-.+|...|  -+...|..++.+|... ..+.-..+|+.+.+..+. |+..-..|+..|
T Consensus        67 ~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~y  142 (711)
T COG1747          67 SCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKY  142 (711)
T ss_pred             hHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHH
Confidence            345567788888888888888888888865  3667788888888777 566677888888887654 455555566666


Q ss_pred             HhhCCHHHHHHHHhhcCCC------Ch---hhHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHhccC
Q 043124           87 AKCGSLDRSLLVFFKLREK------NL---FCWNSIIEGLAVHGFAHEALAMFDRMIYE-NVEPNGVTFISVLSACTHAG  156 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~------~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~  156 (331)
                      -+ ++.+.+...|.+...+      +.   ..|..+...-  ..+.+..+.+..++... |..--...+.-+-.-|....
T Consensus       143 Ek-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~e  219 (711)
T COG1747         143 EK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENE  219 (711)
T ss_pred             HH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcccc
Confidence            55 7778888777766432      11   2455554422  34566666666666543 44445566666667788889


Q ss_pred             cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          157 LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       157 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      ++.+|++++..+.+ ++ ..|...-..++..+
T Consensus       220 N~~eai~Ilk~il~-~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         220 NWTEAIRILKHILE-HD-EKDVWARKEIIENL  249 (711)
T ss_pred             CHHHHHHHHHHHhh-hc-chhhhHHHHHHHHH
Confidence            99999999997773 22 34444555555444

>smart00028 TPR Tetratricopeptide repeats

Probab=88.21  E-value=1.4  Score=21.36  Aligned_cols=28  Identities=14%  Similarity=0.010  Sum_probs=13.5

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHhcCC
Q 043124          214 GALLGGCKLHRNLEIAHIAVNELMILEP  241 (331)
Q Consensus       214 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p  241 (331)
                      ..+...+...++++.|...++..++..|
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            3344444455555555555555544444

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=88.13  E-value=8.4  Score=31.40  Aligned_cols=85  Identities=16%  Similarity=0.033  Sum_probs=42.4

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC-CC---ChhhHHHHHHHHH---
Q 043124           46 TVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR-EK---NLFCWNSIIEGLA---  118 (331)
Q Consensus        46 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~---~~~~~~~li~~~~---  118 (331)
                      .=|.+++..+++.++....-+--+..-+....+....|-.|.+.|+...+.++-..-. .|   +...|..++..|.   
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            3455666666666665543222211111123344455556666666666665544322 12   3334555554443   


Q ss_pred             --hCCCHHHHHHHH
Q 043124          119 --VHGFAHEALAMF  130 (331)
Q Consensus       119 --~~~~~~~a~~~~  130 (331)
                        -.|.+++|+++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence              357777777665

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.08  E-value=21  Score=32.65  Aligned_cols=155  Identities=17%  Similarity=0.091  Sum_probs=98.7

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHH
Q 043124           18 QNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLL   97 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~   97 (331)
                      -.|+++.|..++....       ....+.+...+.+.|-.+.|+++-       ..|+.     -.....+.|+++.|.+
T Consensus       598 mrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~s-------~D~d~-----rFelal~lgrl~iA~~  658 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALELS-------TDPDQ-----RFELALKLGRLDIAFD  658 (794)
T ss_pred             hhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhcC-------CChhh-----hhhhhhhcCcHHHHHH
Confidence            4577777766544332       234456666777777777666542       22322     2334567788998888


Q ss_pred             HHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc
Q 043124           98 VFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE  177 (331)
Q Consensus        98 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  177 (331)
                      +..+.  .+..-|..|..+..+.+++..|.+.|.+...         |..|+-.+...|+.+.-..+-.... +.|. .+
T Consensus       659 la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~-~~g~-~N  725 (794)
T KOG0276|consen  659 LAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAK-KQGK-NN  725 (794)
T ss_pred             HHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHH-hhcc-cc
Confidence            76554  3556789999999999999999999887654         3345556666777665555544444 3332 22


Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCc
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSSKFQPN  209 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~  209 (331)
                           .-.-+|...|+++++.+++.+-+.-|.
T Consensus       726 -----~AF~~~~l~g~~~~C~~lLi~t~r~pe  752 (794)
T KOG0276|consen  726 -----LAFLAYFLSGDYEECLELLISTQRLPE  752 (794)
T ss_pred             -----hHHHHHHHcCCHHHHHHHHHhcCcCcH
Confidence                 223356788999999999887654443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=87.89  E-value=24  Score=33.16  Aligned_cols=244  Identities=10%  Similarity=-0.009  Sum_probs=124.7

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      +..+.+.+++...+..+..     .+.+...-.....+....|+.++|......+-..| ......++.++..+.+.|.+
T Consensus       106 l~~La~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g~l  179 (644)
T PRK11619        106 VNELARREDWRGLLAFSPE-----KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSGKQ  179 (644)
T ss_pred             HHHHHHccCHHHHHHhcCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcCCC
Confidence            3445566777766653211     23455555666777777787776666555554444 22345566666666655543


Q ss_pred             H------------------HHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH---HHHHH
Q 043124           93 D------------------RSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFI---SVLSA  151 (331)
Q Consensus        93 ~------------------~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---~ll~~  151 (331)
                      .                  .|..+...+..........++...   .+...+...+..     ++|+...-.   ..+.-
T Consensus       180 t~~d~w~R~~~al~~~~~~lA~~l~~~l~~~~~~~a~a~~al~---~~p~~~~~~~~~-----~~~~~~~~~~~~~~l~R  251 (644)
T PRK11619        180 DPLAYLERIRLAMKAGNTGLVTYLAKQLPADYQTIASALIKLQ---NDPNTVETFART-----TGPTDFTRQMAAVAFAS  251 (644)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHhcChhHHHHHHHHHHHH---HCHHHHHHHhhc-----cCCChhhHHHHHHHHHH
Confidence            3                  332222222110001111111111   122222222211     222321111   11222


Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCc--HhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCcHHHHHHHHHHHhhcCCHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPE--VEHYGCMVDLLSKAGLLEDALELIRSSK-FQPNAVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~  228 (331)
                      + ...+.+.|...+.......++.+.  ...+..+.......+...+|...+.... ...+......-+......++++.
T Consensus       252 l-ar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        252 V-ARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQSTSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             H-HHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccCCcHHHHHHHHHHHHccCHHH
Confidence            2 344568888888887544444443  2334444444444433566777776643 22344445555556568888888


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +...+..|-...-.......=+++++...|+.++|...|++..
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            8888877654222223333347778777888888888888864

>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=87.76  E-value=1.8  Score=22.08  Aligned_cols=28  Identities=18%  Similarity=0.178  Sum_probs=19.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      +|..+...|...|++++|.+.|++..+.
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4566667777777777777777776553

...

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.54  E-value=1.1  Score=24.94  Aligned_cols=26  Identities=19%  Similarity=0.206  Sum_probs=22.0

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          249 LLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       249 ~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .|..+|...|+.+.|..+++++...|
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            47889999999999999999988543

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=87.19  E-value=0.82  Score=23.10  Aligned_cols=27  Identities=11%  Similarity=0.090  Sum_probs=23.7

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          247 CTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       247 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +..++.++.+.|++++|...|+++.+.
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            456888999999999999999999864

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.15  E-value=12  Score=32.99  Aligned_cols=125  Identities=10%  Similarity=0.028  Sum_probs=84.1

Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      -...|++-.|-+-+....+.+.-.|+....  ....+...|+++.+...+....  +.....+...+++...+.|+++.|
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHH
Confidence            345577766655444444344334443333  3344678899999999887542  345667788899999999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          230 HIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      ....+.|+...-.++.....-...-...|-++++...|+++...+.+.+
T Consensus       377 ~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~  425 (831)
T PRK15180        377 LSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQ  425 (831)
T ss_pred             HHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhc
Confidence            9999999885554454433333444556888999999999876554433

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=86.87  E-value=5  Score=28.25  Aligned_cols=71  Identities=11%  Similarity=0.150  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          125 EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       125 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                      +..+.++.+...++.|++......+++|.+.+|+..|.++|+-++.+.  .+....|-.++         ++...+++++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~--g~~k~~Y~y~v---------~elkpvl~EL  135 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDKC--GAQKQVYPYYV---------KELKPVLNEL  135 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhc--ccHHHHHHHHH---------HHHHHHHHHh
Confidence            566677777777889999999999999999999999999999998544  33333455544         3445566666


Q ss_pred             CC
Q 043124          205 KF  206 (331)
Q Consensus       205 ~~  206 (331)
                      |+
T Consensus       136 GI  137 (149)
T KOG4077|consen  136 GI  137 (149)
T ss_pred             CC
Confidence            63

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=85.94  E-value=7.5  Score=25.37  Aligned_cols=65  Identities=8%  Similarity=0.024  Sum_probs=37.1

Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHH
Q 043124           61 REIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEAL  127 (331)
Q Consensus        61 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  127 (331)
                      .++++.+.+.|+- +..-...+-.+-...|+.+.|.+++..+. +.+..|..++.++...|..+-|.
T Consensus        22 ~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~aF~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          22 RDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QKEGWFSKFLQALRETEHHELAR   86 (88)
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cCCcHHHHHHHHHHHcCchhhhh
Confidence            4556666666532 22222222222224567777777777777 67777777777777776655543

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=85.63  E-value=16  Score=28.78  Aligned_cols=180  Identities=12%  Similarity=0.029  Sum_probs=105.2

Q ss_pred             HccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChh-hHHHH--HHHHHhCCCHHHHHH
Q 043124           52 AHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLF-CWNSI--IEGLAVHGFAHEALA  128 (331)
Q Consensus        52 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~l--i~~~~~~~~~~~a~~  128 (331)
                      -..|-...|+--|.+.+... |.-+.+||-|.-.+...|+++.|.+.|+...+-|+. -|..+  .-++.-.|+++-|.+
T Consensus        76 DSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~  154 (297)
T COG4785          76 DSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQD  154 (297)
T ss_pred             hhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHH
Confidence            33455555555566655543 334678999998999999999999999999876653 22222  233445789999988


Q ss_pred             HHHHHHHcCC-CCcHHHHHHHHHHHhccCcHHHHHHHH-HhhhhcCCCCCcHhHHHH-HHHHHHHcCCHHHHHHHHHhCC
Q 043124          129 MFDRMIYENV-EPNGVTFISVLSACTHAGLVEEGRRRF-LSMTCGYSITPEVEHYGC-MVDLLSKAGLLEDALELIRSSK  205 (331)
Q Consensus       129 ~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~  205 (331)
                      =+...-+.+. .|-...|.-+.   -..-++.+|..-+ ++..     ..|..-|.. ++..|...=..+.+.+-...-.
T Consensus       155 d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~-----~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a  226 (297)
T COG4785         155 DLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAE-----KSDKEQWGWNIVEFYLGKISEETLMERLKADA  226 (297)
T ss_pred             HHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHH-----hccHhhhhHHHHHHHHhhccHHHHHHHHHhhc
Confidence            8877776641 22222232222   2334555665444 3343     223333433 3333333323333333332211


Q ss_pred             ------CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          206 ------FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       206 ------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                            .+.=..||--|.+-+...|+.++|..+|+-++..+
T Consensus       227 ~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         227 TDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence                  01123467777788899999999999999888744

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion)

Probab=85.45  E-value=9.4  Score=26.05  Aligned_cols=89  Identities=15%  Similarity=0.125  Sum_probs=54.2

Q ss_pred             cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043124           54 LGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRM  133 (331)
Q Consensus        54 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  133 (331)
                      ....++|..+.+.+...+- -...+--+-+..+.+.|++++|+..=.....||...|.+|-  -.+.|..+++..-+.++
T Consensus        19 ~HcH~EA~tIa~wL~~~~~-~~E~v~lIr~~sLmNrG~Yq~ALl~~~~~~~pdL~p~~AL~--a~klGL~~~~e~~l~rl   95 (116)
T PF09477_consen   19 HHCHQEANTIADWLEQEGE-MEEVVALIRLSSLMNRGDYQEALLLPQCHCYPDLEPWAALC--AWKLGLASALESRLTRL   95 (116)
T ss_dssp             TT-HHHHHHHHHHHHHTTT-THHHHHHHHHHHHHHTT-HHHHHHHHTTS--GGGHHHHHHH--HHHCT-HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHhhHHHHHHHHhcccCCCccHHHHHHHH--HHhhccHHHHHHHHHHH
Confidence            3456788888888877653 23333334455677888888885555555567777776653  45778888888888877


Q ss_pred             HHcCCCCcHHHHH
Q 043124          134 IYENVEPNGVTFI  146 (331)
Q Consensus       134 ~~~~~~p~~~~~~  146 (331)
                      ...| .|....|.
T Consensus        96 a~~g-~~~~q~Fa  107 (116)
T PF09477_consen   96 ASSG-SPELQAFA  107 (116)
T ss_dssp             CT-S-SHHHHHHH
T ss_pred             HhCC-CHHHHHHH
Confidence            6665 45554443

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=85.27  E-value=2.8  Score=23.33  Aligned_cols=25  Identities=16%  Similarity=0.194  Sum_probs=15.1

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcC
Q 043124          113 IIEGLAVHGFAHEALAMFDRMIYEN  137 (331)
Q Consensus       113 li~~~~~~~~~~~a~~~~~~m~~~~  137 (331)
                      +..+|...|+.+.|.++++++...|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            4556666666666666666666443

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.

>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=84.77  E-value=3.5  Score=26.26  Aligned_cols=47  Identities=9%  Similarity=0.152  Sum_probs=31.5

Q ss_pred             ccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHH
Q 043124          154 HAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALEL  200 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~  200 (331)
                      ..++.+.|+..|....++..-.++ -.+...++.+|+..|++.+++++
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            667777888888877744333333 34566677778888888877665

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

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=84.15  E-value=22  Score=29.26  Aligned_cols=115  Identities=9%  Similarity=0.076  Sum_probs=70.4

Q ss_pred             CHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHHhc-cCc-HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHH
Q 043124          122 FAHEALAMFDRMIY-ENVEPNGVTFISVLSACTH-AGL-VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDAL  198 (331)
Q Consensus       122 ~~~~a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~-~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  198 (331)
                      ...+|+++|+..-. ..+--|......+++.... .+. ...-.++.+-+...++-.++..+...++..+++.+++.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            35566776663221 2244566666666666654 222 22222333334434455667777777888888888888888


Q ss_pred             HHHHhCC----CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 043124          199 ELIRSSK----FQPNAVIWGALLGGCKLHRNLEIAHIAVNEL  236 (331)
Q Consensus       199 ~~~~~~~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  236 (331)
                      ++++...    ..-|...|..+|......|+..-..++.++.
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~G  264 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDG  264 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCC
Confidence            8877532    2336677888888888888877777666655

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.97  E-value=22  Score=29.00  Aligned_cols=222  Identities=14%  Similarity=0.223  Sum_probs=120.4

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHC---CC--CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh----CC-CCchhHH
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNS---GI--SPDQVTMATVLSACAHLGALDLGREIHLYVMQI----GF-DIDVYIG   79 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~---~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~   79 (331)
                      .-+|....+.+++++....|.++...   .+  .-+..+.++++.--+.+.+.+.-..+++.-++.    .- ..=-.+-
T Consensus        69 KQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTN  148 (440)
T KOG1464|consen   69 KQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTN  148 (440)
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeecc
Confidence            44567777778888887777777432   11  124455666666555556665555555443221    00 0001233


Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcCCC--------C-------hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCcHH
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLREK--------N-------LFCWNSIIEGLAVHGFAHEALAMFDRMIYEN-VEPNGV  143 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~~~--------~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~  143 (331)
                      +.|...|...|.+.+..++++++.+.        |       ...|..-|..|....+-.....+|++..... .-|.+.
T Consensus       149 tKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPl  228 (440)
T KOG1464|consen  149 TKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPL  228 (440)
T ss_pred             chHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchH
Confidence            45677777788888887777766521        1       2467777788888888777778887765432 234444


Q ss_pred             HHHHHHHHHh-----ccCcHHHHHHHHHhhhhcCCCC--Cc---HhHHHHHHHHHHHcCCHHHHHHHHHh--C---CCCC
Q 043124          144 TFISVLSACT-----HAGLVEEGRRRFLSMTCGYSIT--PE---VEHYGCMVDLLSKAGLLEDALELIRS--S---KFQP  208 (331)
Q Consensus       144 ~~~~ll~~~~-----~~~~~~~a~~~~~~~~~~~~~~--~~---~~~~~~l~~~~~~~~~~~~a~~~~~~--~---~~~p  208 (331)
                      ... +|+-|+     +.|.+++|..-|-+.-+.+.-.  |.   ..-|-.|...+.+.|-     .=|+.  .   .-.|
T Consensus       229 ImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~i-----NPFDsQEAKPyKNdP  302 (440)
T KOG1464|consen  229 IMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGI-----NPFDSQEAKPYKNDP  302 (440)
T ss_pred             HHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCC-----CCCcccccCCCCCCH
Confidence            333 555554     5688888765444333233211  21   1223333344443331     00111  1   1346


Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          209 NAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       209 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .....+.++.+|- .+++.+.++++..-..
T Consensus       303 EIlAMTnlv~aYQ-~NdI~eFE~Il~~~~~  331 (440)
T KOG1464|consen  303 EILAMTNLVAAYQ-NNDIIEFERILKSNRS  331 (440)
T ss_pred             HHHHHHHHHHHHh-cccHHHHHHHHHhhhc
Confidence            6677778887774 4566666555544433

>KOG2300 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.76  E-value=31  Score=30.68  Aligned_cols=154  Identities=14%  Similarity=0.025  Sum_probs=94.0

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcC-CCCcH--------HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcH--hHH
Q 043124          113 IIEGLAVHGFAHEALAMFDRMIYEN-VEPNG--------VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEV--EHY  181 (331)
Q Consensus       113 li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~--------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~  181 (331)
                      ++.+-.-.|++.+|++-...|++.- -.|.+        .....+...|+..|-++.|+.-|....+. .-..|.  ..-
T Consensus       329 iv~c~lv~~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k~-t~~~dl~a~~n  407 (629)
T KOG2300|consen  329 IVMCRLVRGDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATKL-TESIDLQAFCN  407 (629)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHHh-hhHHHHHHHHH
Confidence            3334445799999999999998752 22331        11122233456778999999999887732 222232  223


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHH--------HHHHH--HhhcCCHHHHHHHHHHHHhcC--CC----Ccc
Q 043124          182 GCMVDLLSKAGLLEDALELIRSSKFQPNAVIWG--------ALLGG--CKLHRNLEIAHIAVNELMILE--PN----NSG  245 (331)
Q Consensus       182 ~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~--------~l~~~--~~~~~~~~~a~~~~~~~~~~~--p~----~~~  245 (331)
                      ..+.-.|.+.|+.+.-.++++.++ .|+..++.        .++.+  ....+++.+|.+++++.++..  -+    ..-
T Consensus       408 lnlAi~YL~~~~~ed~y~~ld~i~-p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkmanaed~~rL~a~  486 (629)
T KOG2300|consen  408 LNLAISYLRIGDAEDLYKALDLIG-PLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMANAEDLNRLTAC  486 (629)
T ss_pred             HhHHHHHHHhccHHHHHHHHHhcC-CCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcchhhHHHHHHH
Confidence            345567889999999888888876 22222111        11222  357899999999999998843  11    111


Q ss_pred             hHHHHHHHHHhcCCchHHHHHHH
Q 043124          246 YCTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       246 ~~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      ....|...+...|+..++.+..+
T Consensus       487 ~LvLLs~v~lslgn~~es~nmvr  509 (629)
T KOG2300|consen  487 SLVLLSHVFLSLGNTVESRNMVR  509 (629)
T ss_pred             HHHHHHHHHHHhcchHHHHhccc
Confidence            22345566677788777765443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.72  E-value=6.6  Score=34.57  Aligned_cols=120  Identities=10%  Similarity=0.023  Sum_probs=74.3

Q ss_pred             HHHHhCCChhHHH-HHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           14 TCYSQNKQFREAL-DAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        14 ~~~~~~~~~~~a~-~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      .-....|+.-.|- +++..+....-.|+....  ........|+++.+.+.+...... +.....+...+++...+.|++
T Consensus       297 ~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        297 TKQLADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHhhccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhH
Confidence            3344556666554 455555544334444433  334456779999998888776654 445677888889999999999


Q ss_pred             HHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124           93 DRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus        93 ~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      ++|..+-+-|...   +...........-..|-++++...|+++...
T Consensus       374 ~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        374 REALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            9999888777643   2222222222233445567777777776544

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=83.34  E-value=34  Score=32.01  Aligned_cols=19  Identities=16%  Similarity=0.237  Sum_probs=13.5

Q ss_pred             HHHHHhCCChhHHHHHHHH
Q 043124           13 ITCYSQNKQFREALDAFNE   31 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~   31 (331)
                      ...+.-.|+|+.|++.+-+
T Consensus       265 f~~LlLtgqFE~AI~~L~~  283 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR  283 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHh
Confidence            3556677889999888766

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.

>PRK09687 putative lyase; Provisional

Probab=83.20  E-value=25  Score=29.10  Aligned_cols=234  Identities=11%  Similarity=-0.001  Sum_probs=149.3

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCc----hHHHHHHHHHHHhCCCCchhH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGAL----DLGREIHLYVMQIGFDIDVYI   78 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~   78 (331)
                      .+|....-..+.++...|. +++...+..+.+.   +|...-...+.+++..|+.    .++...+..+...  .++..+
T Consensus        34 d~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~V  107 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACV  107 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHH
Confidence            4666677778888888875 4455555555543   3566666677778888874    4566666666443  456666


Q ss_pred             HHHHHHHHHhhCC-----HHHHHHHHh-hcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           79 GSALVDMYAKCGS-----LDRSLLVFF-KLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        79 ~~~l~~~~~~~g~-----~~~a~~~~~-~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      ....+.++...+.     ..++...+. .+..++..+-...+.++.+.++ .++...+-.+.+.   ++...-...+.++
T Consensus       108 R~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aL  183 (280)
T PRK09687        108 RASAINATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFAL  183 (280)
T ss_pred             HHHHHHHHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHH
Confidence            6666666665542     123444443 3445677788888889988887 4577777776653   4445555566666


Q ss_pred             hccC-cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 043124          153 THAG-LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       153 ~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  231 (331)
                      ++.+ ....+...+..+..    .++..+-..-+.++.+.|+....-.+++.+. .++.  ....+.++...|+. +|..
T Consensus       184 g~~~~~~~~~~~~L~~~L~----D~~~~VR~~A~~aLg~~~~~~av~~Li~~L~-~~~~--~~~a~~ALg~ig~~-~a~p  255 (280)
T PRK09687        184 NSNKYDNPDIREAFVAMLQ----DKNEEIRIEAIIGLALRKDKRVLSVLIKELK-KGTV--GDLIIEAAGELGDK-TLLP  255 (280)
T ss_pred             hcCCCCCHHHHHHHHHHhc----CCChHHHHHHHHHHHccCChhHHHHHHHHHc-CCch--HHHHHHHHHhcCCH-hHHH
Confidence            6653 24466777777662    3466667777888999988544444444454 3442  34677888888886 6889


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHH
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      .+..+....|+ ..+-...+.++.
T Consensus       256 ~L~~l~~~~~d-~~v~~~a~~a~~  278 (280)
T PRK09687        256 VLDTLLYKFDD-NEIITKAIDKLK  278 (280)
T ss_pred             HHHHHHhhCCC-hhHHHHHHHHHh
Confidence            99998887775 444444555543

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.19  E-value=21  Score=29.26  Aligned_cols=52  Identities=15%  Similarity=0.121  Sum_probs=23.1

Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH-----cCCHHHHHHHH
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK-----AGLLEDALELI  201 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~  201 (331)
                      |-.|.+.+....+.++-.......+ .-+..-|..++..|..     .|.+++|.++.
T Consensus       125 ILLysKv~Ep~amlev~~~WL~~p~-Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  125 ILLYSKVQEPAAMLEVASAWLQDPS-NQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhCcc-cCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            3345555555555555544442111 1112224444444432     35555555555

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

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=82.56  E-value=14  Score=26.18  Aligned_cols=42  Identities=5%  Similarity=-0.024  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHH
Q 043124          228 IAHIAVNELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       228 ~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  269 (331)
                      .+.++|..|..  ++-..+.+|......+...|++++|..+++.
T Consensus        81 ~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~  124 (126)
T PF08311_consen   81 DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQL  124 (126)
T ss_dssp             HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            77777777766  5566677788888888888888888888865

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=82.42  E-value=26  Score=28.84  Aligned_cols=85  Identities=13%  Similarity=0.026  Sum_probs=52.8

Q ss_pred             CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHhccCcHHHHHHHHHh----hhhcCCCCCcHh
Q 043124          105 KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYE-NVEPNGVTFISVLSACTHAGLVEEGRRRFLS----MTCGYSITPEVE  179 (331)
Q Consensus       105 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~----~~~~~~~~~~~~  179 (331)
                      .+..+--..+..++..++|..-+++++..... +..-|..-|...|..-...|+..-...+.++    ..+++++..+..
T Consensus       200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~  279 (292)
T PF13929_consen  200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDE  279 (292)
T ss_pred             CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHH
Confidence            34555666677777777777777777666544 3444566677777777777777766666665    122566666665


Q ss_pred             HHHHHHHHHH
Q 043124          180 HYGCMVDLLS  189 (331)
Q Consensus       180 ~~~~l~~~~~  189 (331)
                      .-..+-..+.
T Consensus       280 L~~~L~~LF~  289 (292)
T PF13929_consen  280 LRSQLSELFK  289 (292)
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>PRK09687 putative lyase; Provisional

Probab=82.40  E-value=27  Score=28.91  Aligned_cols=219  Identities=10%  Similarity=0.007  Sum_probs=139.3

Q ss_pred             CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH----HHHHHHHhhc--CCCChhhHH
Q 043124           38 SPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL----DRSLLVFFKL--REKNLFCWN  111 (331)
Q Consensus        38 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----~~a~~~~~~~--~~~~~~~~~  111 (331)
                      .+|.......+.++...|..+ +...+..+..   .++...-...+.++...|+.    +++...+..+  .+++..+..
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~  109 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQD-VFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRA  109 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcch-HHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHH
Confidence            356667777777887777644 3333444443   34566666777888888863    5678888766  456777777


Q ss_pred             HHHHHHHhCCCH-----HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          112 SIIEGLAVHGFA-----HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       112 ~li~~~~~~~~~-----~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      ..+.++...+..     ..+...+.....   .++...-...+.++++.++ +.+...+-.+.+    .++...-..-+.
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~----d~~~~VR~~A~~  181 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLK----DPNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc----CCCHHHHHHHHH
Confidence            777777665432     234444444433   3455666677888888887 456666666662    234445555556


Q ss_pred             HHHHcC-CHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHH
Q 043124          187 LLSKAG-LLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTK  265 (331)
Q Consensus       187 ~~~~~~-~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  265 (331)
                      ++.+.+ ....+...+..+-..++...-...+.++.+.++. .+...+-+.++.. +   .....+.++...|.. +|..
T Consensus       182 aLg~~~~~~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~-~---~~~~a~~ALg~ig~~-~a~p  255 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAMLQDKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG-T---VGDLIIEAAGELGDK-TLLP  255 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC-c---hHHHHHHHHHhcCCH-hHHH
Confidence            666653 2446666666544467777777888888888884 4555555555432 2   345688899999984 6888


Q ss_pred             HHHHHHhcC
Q 043124          266 IRVAMKELG  274 (331)
Q Consensus       266 ~~~~m~~~~  274 (331)
                      .+..+.+..
T Consensus       256 ~L~~l~~~~  264 (280)
T PRK09687        256 VLDTLLYKF  264 (280)
T ss_pred             HHHHHHhhC
Confidence            888887643

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.23  E-value=46  Score=31.51  Aligned_cols=52  Identities=15%  Similarity=0.111  Sum_probs=24.6

Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCC-----hhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKN-----LFCWNSIIEGLAVHGFAHEALAMFDRMI  134 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~  134 (331)
                      ++.+.+.+.+++|+++.+.....-     ...+...|..+.-.|++++|-...-.|.
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~  419 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKML  419 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHh
Confidence            344445555555555554443211     1234445555555555555555555543

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=82.10  E-value=32  Score=29.65  Aligned_cols=56  Identities=11%  Similarity=0.096  Sum_probs=40.3

Q ss_pred             HHHHhhcCCHHHHHHHHHHHHhcCCC-CcchHHHHHHHH-HhcCCchHHHHHHHHHHh
Q 043124          217 LGGCKLHRNLEIAHIAVNELMILEPN-NSGYCTLLLNMY-AEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       217 ~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~-~~~g~~~~a~~~~~~m~~  272 (331)
                      +..+.+.|-+..|.++.+-+..++|. |+......|+.| .+.++++-.+++.+....
T Consensus       110 i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen  110 IQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            34477888888888888888888887 666656666666 456777777777776554

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=82.07  E-value=13  Score=30.56  Aligned_cols=57  Identities=12%  Similarity=0.130  Sum_probs=31.8

Q ss_pred             HHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhc
Q 043124           45 ATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKL  102 (331)
Q Consensus        45 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  102 (331)
                      +...+.|..+|.+.+|.++.+..+... +.+...+-.|++.+...|+--.|.+.++++
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            334445556666666666666655553 345555556666666666654554444444

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.62  E-value=34  Score=29.64  Aligned_cols=172  Identities=14%  Similarity=0.089  Sum_probs=76.5

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-------------Ch
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGF--DIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-------------NL  107 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------------~~  107 (331)
                      .+.-+...|...|+++.|++.+.......-  ......|-.+|..-.-.|+|........+..+.             ..
T Consensus       152 a~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl  231 (466)
T KOG0686|consen  152 ALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKL  231 (466)
T ss_pred             HHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcch
Confidence            455555666666666666666655433210  112223334444444445555444444333221             11


Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcC------CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYEN------VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHY  181 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  181 (331)
                      .++..+..  ...+++..|.+.|-......      +.|+..+.-..+.++.--++-+--..+.....-+.=...++..+
T Consensus       232 ~C~agLa~--L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi~n~~Fk~flel~Pqlr  309 (466)
T KOG0686|consen  232 KCAAGLAN--LLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVIKNESFKLFLELEPQLR  309 (466)
T ss_pred             HHHHHHHH--HHHHHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHHcchhhhhHHhcChHHH
Confidence            22222322  23335666655554332110      33444443334455444444333222222211000012234455


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhCC--------CCCcHHHHHHHHH
Q 043124          182 GCMVDLLSKAGLLEDALELIRSSK--------FQPNAVIWGALLG  218 (331)
Q Consensus       182 ~~l~~~~~~~~~~~~a~~~~~~~~--------~~p~~~~~~~l~~  218 (331)
                      ..+.+.|  .+++...+++++++.        +.|.+.+...+|+
T Consensus       310 ~il~~fy--~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR  352 (466)
T KOG0686|consen  310 EILFKFY--SSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIR  352 (466)
T ss_pred             HHHHHHh--hhhHHHHHHHHHHhccceeechhcchhHHHHHHHHH
Confidence            5544443  457888889888764        4455555554444

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=81.45  E-value=13  Score=24.59  Aligned_cols=35  Identities=9%  Similarity=0.129  Sum_probs=16.0

Q ss_pred             HhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          237 MILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       237 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++.+|++......+...+...|++++|++.+-++.
T Consensus        15 ~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v   49 (90)
T PF14561_consen   15 LAANPDDLDARYALADALLAAGDYEEALDQLLELV   49 (90)
T ss_dssp             HHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            33445544444445555555555555554444444

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.33  E-value=1.9  Score=27.48  Aligned_cols=47  Identities=9%  Similarity=0.014  Sum_probs=33.5

Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhcCCchHHHHHH
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNS---GYCTLLLNMYAEVSRWAEVTKIR  267 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~  267 (331)
                      ....+-++|...|+++++..++..   .+...|+.+|+..|++.+++++-
T Consensus        17 Y~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   17 YHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             hccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            367778888888888888554433   34456778888888888877653

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

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.12  E-value=46  Score=30.74  Aligned_cols=181  Identities=12%  Similarity=0.049  Sum_probs=104.0

Q ss_pred             HHHHHHHHhhcCCC-ChhhHHHHHHH-----HHhCCCHHHHHHHHHHHHH-------cCCCCcHHHHHHHHHHHhcc---
Q 043124           92 LDRSLLVFFKLREK-NLFCWNSIIEG-----LAVHGFAHEALAMFDRMIY-------ENVEPNGVTFISVLSACTHA---  155 (331)
Q Consensus        92 ~~~a~~~~~~~~~~-~~~~~~~li~~-----~~~~~~~~~a~~~~~~m~~-------~~~~p~~~~~~~ll~~~~~~---  155 (331)
                      ...|.+.++...+. ++..-..++.+     +...++.+.|+..|+.+.+       .|.++   ....+..+|.+.   
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~---a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPP---AQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCc---cccHHHHHHhcCCCC
Confidence            45677777766654 33333333333     3355678899999988866       44222   344455555553   


Q ss_pred             -C-cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH-cCCHHHHHHHHHhCCCCCcHHHHHHHHHHH----hhcCCHHH
Q 043124          156 -G-LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK-AGLLEDALELIRSSKFQPNAVIWGALLGGC----KLHRNLEI  228 (331)
Q Consensus       156 -~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~----~~~~~~~~  228 (331)
                       . +.+.|..+|.... ..| .|+....-..+..... ..+...|.++|......-.+..+..+..+|    ....+.+.
T Consensus       305 ~~~d~~~A~~~~~~aA-~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~  382 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAA-ELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLEL  382 (552)
T ss_pred             ccccHHHHHHHHHHHH-hcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHH
Confidence             2 6778999988887 444 3443333222222222 246788999888643222333333333332    23457889


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      |..++.++.+.++.....-...+..+.. ++++.+.-.+..+.+.|....
T Consensus       383 A~~~~k~aA~~g~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~  431 (552)
T KOG1550|consen  383 AFAYYKKAAEKGNPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVA  431 (552)
T ss_pred             HHHHHHHHHHccChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHH
Confidence            9999998888773322222233344444 788888888877777775544

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=81.03  E-value=4.2  Score=20.14  Aligned_cols=29  Identities=10%  Similarity=0.016  Sum_probs=22.1

Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          224 RNLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      |+.+.|..+|++++...|.+...|...+.
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~   29 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAE   29 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHH
Confidence            46788888888888888877777765554

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=81.00  E-value=55  Score=31.56  Aligned_cols=215  Identities=13%  Similarity=-0.026  Sum_probs=114.1

Q ss_pred             HccCCchHHHHHHHHHHHhCCCCch-------hHHHHHH-HHHHhhCCHHHHHHHHhhcCC--------CChhhHHHHHH
Q 043124           52 AHLGALDLGREIHLYVMQIGFDIDV-------YIGSALV-DMYAKCGSLDRSLLVFFKLRE--------KNLFCWNSIIE  115 (331)
Q Consensus        52 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~li~  115 (331)
                      ....++.+|..+..++...-..|+.       ..++.|- ......|+.++|+++.+....        ..+..+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            3457888888888877654222221       1233332 223356788888877665432        25567777888


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH-----HHHhccCcH--HHHHHHHHhhhhcCCC-----CCcHhHHHH
Q 043124          116 GLAVHGFAHEALAMFDRMIYENVEPNGVTFISVL-----SACTHAGLV--EEGRRRFLSMTCGYSI-----TPEVEHYGC  183 (331)
Q Consensus       116 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll-----~~~~~~~~~--~~a~~~~~~~~~~~~~-----~~~~~~~~~  183 (331)
                      +..-.|++++|..+..+..+..-.-+...+....     ..+...|..  .+....|.........     .+-..++..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            8888899999988887776553233433333222     224455632  2233333333321111     111234444


Q ss_pred             HHHHHHHcCCHHHHHHHHH---hCC--CCCc--HHH--HHHHHHHHhhcCCHHHHHHHHHHHHh--cCCCCcchHHH---
Q 043124          184 MVDLLSKAGLLEDALELIR---SSK--FQPN--AVI--WGALLGGCKLHRNLEIAHIAVNELMI--LEPNNSGYCTL---  249 (331)
Q Consensus       184 l~~~~~~~~~~~~a~~~~~---~~~--~~p~--~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~---  249 (331)
                      +..++.+   .+.+..-..   +.+  ..|.  ...  +..|+......|+.++|...++++..  ..+.....|..   
T Consensus       586 ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~  662 (894)
T COG2909         586 LLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAY  662 (894)
T ss_pred             HHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHH
Confidence            4444444   333322222   111  1222  222  23567778899999999999999987  23321222221   


Q ss_pred             --HHHHHHhcCCchHHHHHHHH
Q 043124          250 --LLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       250 --l~~~~~~~g~~~~a~~~~~~  269 (331)
                        -.......|+.+.+.....+
T Consensus       663 ~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         663 KVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HhhHHHhcccCCHHHHHHHHHh
Confidence              12233457888877766655

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	331
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.5 bits (176), Expect = 3e-14
 Identities = 36/294 (12%), Positives = 93/294 (31%), Gaps = 13/294 (4%)

Query: 23  REALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL 82
           + A    +  + +  SP +  +A +L       +LD+ +       Q           A 
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 83  VDMYAKCGSLDRSLLVFFKLREK-------NLFCWNSIIEGLAVHGFAHEALAMFDRMIY 135
                    L  +  +      +        L  +N+++ G A  G   E + +   +  
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 136 ENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLE 195
             + P+ +++ + L              R L       +  +      ++    +A +L+
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 196 DALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA 255
              ++  +    P        +   KL R++      V+   +  P  +  C     ++ 
Sbjct: 254 AVHKVKPTFSLPPQLP---PPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHM 310

Query: 256 EVSRWA---EVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDE 306
           E++       V K  +  KE+   ++   +   + E+ + +     K+    + 
Sbjct: 311 ELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREV 364

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.5 bits (111), Expect = 4e-06
 Identities = 11/65 (16%), Positives = 27/65 (41%)

Query: 5   DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIH 64
            +  +  ++  +++   F+E +     +K++G++PD ++ A  L             E  
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 65  LYVMQ 69
           L  M 
Sbjct: 224 LEQMS 228

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.0 bits (108), Expect = 1e-05
 Identities = 52/385 (13%), Positives = 118/385 (30%), Gaps = 93/385 (24%)

Query: 4   RDIISWTTMITCYSQNKQFREALDAFN------EMKNSGISPDQVTMATVLSACAHLGAL 57
           +DI+S       +  N   ++  D         E+ +  +S D V+    L        L
Sbjct: 19  KDILS--VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL----L 72

Query: 58  DLGREIHLYVMQIGFDIDV-YIGSAL----------VDMYAKCGS-LDRSLLVFFKL--- 102
               E+    ++    I+  ++ S +            MY +    L     VF K    
Sbjct: 73  SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132

Query: 103 REKNLFCWNSIIEGL---------AVHG--------FAHEALAMFDRMIYENVEPNGVTF 145
           R +       + + L          + G         A +    +     +      + +
Sbjct: 133 RLQPY---LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV---QCKMDFKIFW 186

Query: 146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK 205
           +++ +  +   ++E  ++    +   ++   +        ++  +   ++  L  +  SK
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH-----SSNIKLRIHSIQAELRRLLKSK 241

Query: 206 FQPNA------V----IWGALLGGCKL---HRNLEIA---------HIAVNELMI-LEPN 242
              N       V     W A    CK+    R  ++          HI+++   + L P+
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 243 NS-GYCTLLLNMYAEVSRWAEVTKI---RVAMKELGIEKRCPGSSWIEMERKVYQFAASD 298
                    L+   +     EV      R+++  +    R   ++W       ++    D
Sbjct: 302 EVKSLLLKYLDCRPQDLP-REVLTTNPRRLSI--IAESIRDGLATW-----DNWKHVNCD 353

Query: 299 KSHPASDEIYSSLSKLDEQLKLASY 323
           K       I SSL+ L+       +
Sbjct: 354 KLTTI---IESSLNVLEPAEYRKMF 375

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	331
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.84
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.77
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.76
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.76
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.73
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.73
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.72
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.72
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.71
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.68
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.66
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.65
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.65
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.64
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.64
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.62
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.61
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.61
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.61
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.58
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.57
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.56
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.56
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.56
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.55
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.55
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.54
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.54
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.54
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.5
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.46
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.45
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.45
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.44
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.44
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.41
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.4
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.36
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.36
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.35
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.31
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.29
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.28
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.25
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.25
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.25
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.24
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.23
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.23
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.22
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.21
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.2
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.17
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.16
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.16
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.15
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.14
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.12
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.11
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.09
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.09
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.07
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.07
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.06
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.06
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.06
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.03
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.03
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.01
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.99
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.98
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.98
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.95
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.94
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.92
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.92
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.91
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.91
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.89
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.89
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.87
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.87
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.86
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.86
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.84
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.84
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.84
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.84
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.84
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.83
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.81
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.81
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.79
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.78
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.78
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.77
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.77
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.77
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.75
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.73
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.71
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.7
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.7
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.68
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.68
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.68
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.68
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.66
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.65
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.65
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.65
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.64
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.64
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.63
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.62
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.62
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.62
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.62
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.6
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.59
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.57
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.55
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.53
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.52
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.52
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.51
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.5
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.5
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.49
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.44
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.42
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.41
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.4
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.39
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.35
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.34
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.3
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.28
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.28
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.28
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.27
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.24
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.22
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.2
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.2
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.19
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.17
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.09
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.08
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.07
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.03
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.9
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.84
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.83
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.83
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.82
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.81
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.8
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.75
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.74
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.63
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.52
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.49
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.47
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.38
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.29
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.28
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.27
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.27
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.23
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.22
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.08
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	97.0
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.88
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.81
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.71
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.67
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	96.36
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.3
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.29
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.82
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.62
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.54
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.26
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.11
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.08
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.94
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.46
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.28
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.06
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.9
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.53
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	92.92
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.87
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	92.54
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.39
2p58_C	116	Putative type III secretion protein YSCG; type III	92.26
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.18
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.18
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.85
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.8
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	91.43
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.37
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.85
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.19
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	89.97
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.68
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.2
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.49
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.81
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	86.06
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	85.82
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	84.61
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.59
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	83.52
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.45
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	82.67
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	82.2

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.2e-32  Score=241.99  Aligned_cols=185  Identities=12%  Similarity=0.141  Sum_probs=175.8

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCC---------chHHHHHHHHHHHhCCCCch
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGA---------LDLGREIHLYVMQIGFDIDV   76 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~   76 (331)
                      ...++.+|.+|++.|++++|+++|++|.+.|++||..+|++||.+|++.+.         ++.|.++|++|.+.|+.||.
T Consensus        26 e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            345888999999999999999999999999999999999999999987665         57899999999999999999


Q ss_pred             hHHHHHHHHHHhhCCHHHHHHHHhhcC----CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           77 YIGSALVDMYAKCGSLDRSLLVFFKLR----EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      .+|+++|++|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999996    4799999999999999999999999999999999999999999999999


Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA  191 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  191 (331)
                      ++.|+.++|.++|++|. +.++.|+..||+.++..|+..
T Consensus       186 ~~~g~~d~A~~ll~~Mr-~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLR-DLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHHH-HHTSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHHH-HhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999 779999999999999998763

>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=99.98  E-value=2e-31  Score=234.26  Aligned_cols=199  Identities=12%  Similarity=0.092  Sum_probs=171.0

Q ss_pred             hHHHHHHHHHHHCCCCCCHh-hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC---------H
Q 043124           23 REALDAFNEMKNSGISPDQV-TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS---------L   92 (331)
Q Consensus        23 ~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------~   92 (331)
                      ..+..+.+++.+.+..+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+.         +
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            34566677888777765554 5889999999999999999999999999999999999999999987765         7


Q ss_pred             HHHHHHHhhcC----CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhh
Q 043124           93 DRSLLVFFKLR----EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSM  168 (331)
Q Consensus        93 ~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  168 (331)
                      ++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999996    47999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCcHHHHHHHHHHHhh
Q 043124          169 TCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS---KFQPNAVIWGALLGGCKL  222 (331)
Q Consensus       169 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~~~~~~  222 (331)
                      . ..|+.||..+|++||.+|++.|++++|.+++++|   +..|+..||+.++..|..
T Consensus       167 ~-~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          167 V-ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             H-HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             H-hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            9 7899999999999999999999999999999876   589999999999998765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=9.9e-29  Score=224.02  Aligned_cols=281  Identities=10%  Similarity=0.017  Sum_probs=254.7

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      +|..+|+.++..|.+.|++++|+.+|+++.+.+ +.+..++..++.++...|++++|..+++++.+.. +.+..+++.++
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  380 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVG  380 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            789999999999999999999999999999875 4478899999999999999999999999999774 56788999999


Q ss_pred             HHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      .+|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+.|++++
T Consensus       381 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  459 (597)
T 2xpi_A          381 IYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILL  459 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998753   467899999999999999999999999999875 5678899999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHhhcCCHHHHHH
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-------KFQPN--AVIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p~--~~~~~~l~~~~~~~~~~~~a~~  231 (331)
                      |..+|+++.+..  +.+..+|+.++..|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|++++|.+
T Consensus       460 A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~  537 (597)
T 2xpi_A          460 ANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAID  537 (597)
T ss_dssp             HHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999998432  446889999999999999999999999875       55787  7899999999999999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHH
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSL  311 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l  311 (331)
                      .++++.+..|++...|..++.+|.+.|++++|.+.++++.+                           .+|+++.++..+
T Consensus       538 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~---------------------------~~p~~~~~~~~l  590 (597)
T 2xpi_A          538 ALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLA---------------------------ISPNEIMASDLL  590 (597)
T ss_dssp             HHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------------------HCTTCHHHHHHH
T ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh---------------------------cCCCChHHHHHH
Confidence            99999999999999999999999999999999999999985                           347778888888


Q ss_pred             HHHHH
Q 043124          312 SKLDE  316 (331)
Q Consensus       312 ~~l~~  316 (331)
                      +++|.
T Consensus       591 ~~~~~  595 (597)
T 2xpi_A          591 KRALE  595 (597)
T ss_dssp             HHTTC
T ss_pred             HHHHh
Confidence            77764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=3.6e-27  Score=213.76  Aligned_cols=265  Identities=9%  Similarity=-0.065  Sum_probs=199.6

Q ss_pred             CCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 043124            2 PARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA   81 (331)
Q Consensus         2 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   81 (331)
                      |.+++..|+.++..|.+.|++++|+.+|++|.+.  .|+..++..++.+|...|++++|..+++.+...  +++..+++.
T Consensus        80 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~  155 (597)
T 2xpi_A           80 SLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYL  155 (597)
T ss_dssp             --CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHH
Confidence            4578899999999999999999999999999864  678899999999999999999999999987653  678899999


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCCC-------------------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLREK-------------------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG  142 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  142 (331)
                      ++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++|.+.|++|.+.+. .+.
T Consensus       156 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~  234 (597)
T 2xpi_A          156 AAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDA-KCY  234 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCH
T ss_pred             HHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-hhh
Confidence            999999999999999999965543                   378999999999999999999999999987642 122


Q ss_pred             HHHHHH--------------------------------------HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHH
Q 043124          143 VTFISV--------------------------------------LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCM  184 (331)
Q Consensus       143 ~~~~~l--------------------------------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  184 (331)
                      ..+..+                                      +..|.+.|++++|..+|+++.+.   +++..+++.+
T Consensus       235 ~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l  311 (597)
T 2xpi_A          235 EAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL---EKSSDLLLCK  311 (597)
T ss_dssp             HHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG---GGCHHHHHHH
T ss_pred             HHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC---CchHHHHHHH
Confidence            222211                                      33344556666666666665521   3555566666


Q ss_pred             HHHHHHcCCHHHHHHHHHhCC------------------------------------CCCcHHHHHHHHHHHhhcCCHHH
Q 043124          185 VDLLSKAGLLEDALELIRSSK------------------------------------FQPNAVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       185 ~~~~~~~~~~~~a~~~~~~~~------------------------------------~~p~~~~~~~l~~~~~~~~~~~~  228 (331)
                      +.+|.+.|++++|.++|+++.                                    ...+..++..++..|.+.|++++
T Consensus       312 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  391 (597)
T 2xpi_A          312 ADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISE  391 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHH
Confidence            666666666666665555431                                    12246667777777777777777


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      |.++|+++.+..|.+...|..++.+|.+.|++++|.++|+++.+.+
T Consensus       392 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  437 (597)
T 2xpi_A          392 ARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF  437 (597)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7777777777777777777777777777777777777777776543

>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=99.95  E-value=2.5e-24  Score=184.88  Aligned_cols=309  Identities=14%  Similarity=0.159  Sum_probs=226.8

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +.+..+|..+...+.+.|++++|+..|+++.+.. +.+..+|..+..++...|++++|...++++.+.. +.+...+..+
T Consensus        64 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  141 (388)
T 1w3b_A           64 PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDL  141 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            4577889999999999999999999999998863 3356678899999999999999999999998875 3456677788


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ...+...|++++|.+.|+++.+  | +..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|+++
T Consensus       142 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~  220 (388)
T 1w3b_A          142 GNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFD  220 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTT
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            8888889999999999988763  2 45788888888999999999999998888764 445667777777778888888


Q ss_pred             HHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          160 EGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       160 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      +|...|++.....  +.+..++..+..++...|++++|++.++++ ...| +..++..+...+...|++++|...+++++
T Consensus       221 ~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  298 (388)
T 1w3b_A          221 RAVAAYLRALSLS--PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888887776321  234667777777788888888888877763 2344 35667777777777888888888888887


Q ss_pred             hcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeC------CEE----EEeecCCCCCCCchHH
Q 043124          238 ILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEME------RKV----YQFAASDKSHPASDEI  307 (331)
Q Consensus       238 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~------~~~----~~~~~~~~~~p~~~~~  307 (331)
                      +..|++...+..++.++.+.|++++|...++++.+.  .|+ ....+...+      ...    ..+......+|+++.+
T Consensus       299 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a  375 (388)
T 1w3b_A          299 RLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADA  375 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHH
T ss_pred             hhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHH
Confidence            777777777777788888888888888888777653  222 111000000      000    0000001567888899


Q ss_pred             HHHHHHHHHHHH
Q 043124          308 YSSLSKLDEQLK  319 (331)
Q Consensus       308 ~~~l~~l~~~~~  319 (331)
                      +..++.++..++
T Consensus       376 ~~~lg~~~~~~~  387 (388)
T 1w3b_A          376 YSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHhHHHHHHHcc
Confidence            999988877654

>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=99.94  E-value=7e-24  Score=182.13  Aligned_cols=309  Identities=12%  Similarity=0.049  Sum_probs=253.4

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      .+...+..+...+...|++++|...++...+.. +.+..+|..+..++...|++++|+..|+++.+.. +.+..++..+.
T Consensus        31 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  108 (388)
T 1w3b_A           31 DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLA  108 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHH
Confidence            456677788889999999999999999998864 5678899999999999999999999999999874 44667899999


Q ss_pred             HHHHhhCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEE  160 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  160 (331)
                      .++.+.|++++|.+.|+++.+  | +...+..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  187 (388)
T 1w3b_A          109 AALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWL  187 (388)
T ss_dssp             HHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998764  3 45678889999999999999999999999874 4567889999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      |...|+++.+..  +.+...+..+...+...|++++|...+++. ...| +..++..+...+...|++++|...++++++
T Consensus       188 A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  265 (388)
T 1w3b_A          188 AIHHFEKAVTLD--PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE  265 (388)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999998432  335778889999999999999999999864 3455 478888999999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeC------CEE----EEeecCCCCCCCchHHH
Q 043124          239 LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEME------RKV----YQFAASDKSHPASDEIY  308 (331)
Q Consensus       239 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~------~~~----~~~~~~~~~~p~~~~~~  308 (331)
                      ..|+++..|..++.++.+.|++++|...++++.+..  |+ ....+...+      ...    ..+.......|++..++
T Consensus       266 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  342 (388)
T 1w3b_A          266 LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PT-HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAH  342 (388)
T ss_dssp             TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            999999999999999999999999999999998763  22 111110000      000    00000116679999999


Q ss_pred             HHHHHHHHHHHh
Q 043124          309 SSLSKLDEQLKL  320 (331)
Q Consensus       309 ~~l~~l~~~~~~  320 (331)
                      ..++.++...++
T Consensus       343 ~~l~~~~~~~g~  354 (388)
T 1w3b_A          343 SNLASVLQQQGK  354 (388)
T ss_dssp             HHHHHHHHTTTC
T ss_pred             HHHHHHHHHcCC
Confidence            998888765543

>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=99.93  E-value=4.9e-23  Score=180.19  Aligned_cols=311  Identities=12%  Similarity=0.049  Sum_probs=229.4

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +.+...|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++++.+.+ +.+..++..+
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  100 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQR  100 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            3466778889999999999999999999998763 4577888889999999999999999999998885 4467788889


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCC---h---hhHHHH------------HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKN---L---FCWNSI------------IEGLAVHGFAHEALAMFDRMIYENVEPNGVT  144 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~---~---~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  144 (331)
                      +.+|.+.|++++|.+.|+++.+.+   .   .++..+            ...+...|++++|...|+++.+.. +.+...
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  179 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAEL  179 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            999999999999999998886532   2   455544            444888889999999998888764 456777


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHH------
Q 043124          145 FISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGAL------  216 (331)
Q Consensus       145 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l------  216 (331)
                      +..+...+...|++++|...|+++.+..  +.+..++..+...|...|++++|+..++++ ...|+ ...+..+      
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~  257 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLK--NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKL  257 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHH--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHH
Confidence            8888888888888888888888887432  445778888888888888888888888764 23443 3334333      


Q ss_pred             ------HHHHhhcCCHHHHHHHHHHHHhcCCCCcc----hHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEE
Q 043124          217 ------LGGCKLHRNLEIAHIAVNELMILEPNNSG----YCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIE  286 (331)
Q Consensus       217 ------~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  286 (331)
                            ...+...|++++|...++++++..|+++.    .+..++.++.+.|++++|...++++.+..  |+ ....+..
T Consensus       258 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~-~~~~~~~  334 (450)
T 2y4t_A          258 NKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME--PD-NVNALKD  334 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TT-CHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cc-cHHHHHH
Confidence                  66678888888888888888888887643    56777888888888888888888877543  22 1111110


Q ss_pred             eCCEE----------EEeecCCCCCCCchHHHHHHHHHHHHHHhc
Q 043124          287 MERKV----------YQFAASDKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       287 ~~~~~----------~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                      .+...          ..+.......|+++.++..++.+....++.
T Consensus       335 l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~  379 (450)
T 2y4t_A          335 RAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQS  379 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcc
Confidence            00000          000000167888999998888887776654

>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=99.93  E-value=1.2e-22  Score=177.72  Aligned_cols=266  Identities=13%  Similarity=0.028  Sum_probs=228.9

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCch---hHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDV---YIG   79 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   79 (331)
                      +.+..+|..+..++...|++++|+..|+++.+.+ +.+...+..+..++...|++++|...|+++.+.. +.+.   ..+
T Consensus        57 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~  134 (450)
T 2y4t_A           57 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQ  134 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHH
Confidence            4578899999999999999999999999999875 4467889999999999999999999999998864 3344   555


Q ss_pred             HHH------------HHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Q 043124           80 SAL------------VDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVT  144 (331)
Q Consensus        80 ~~l------------~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  144 (331)
                      ..+            ...+.+.|++++|...|+++.+   .+..++..++.+|...|++++|.+.|+++.+.+ +.+..+
T Consensus       135 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  213 (450)
T 2y4t_A          135 SQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEA  213 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            555            4458999999999999998763   467889999999999999999999999998874 567889


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHH------------HHHHHHcCCHHHHHHHHHhC-CCCCc--
Q 043124          145 FISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCM------------VDLLSKAGLLEDALELIRSS-KFQPN--  209 (331)
Q Consensus       145 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~-~~~p~--  209 (331)
                      +..+...+...|++++|...|+++....  +.+...+..+            ...+.+.|++++|...|+++ ...|+  
T Consensus       214 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~  291 (450)
T 2y4t_A          214 FYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIA  291 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcch
Confidence            9999999999999999999999998432  2234445444            78899999999999999874 24454  


Q ss_pred             ---HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          210 ---AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       210 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                         ...+..+..++.+.|++++|...++++++..|++...+..++.+|...|++++|...++++.+.
T Consensus       292 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          292 EYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence               4477888888999999999999999999999999999999999999999999999999999874

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.92  E-value=7.1e-22  Score=165.40  Aligned_cols=280  Identities=8%  Similarity=-0.036  Sum_probs=241.8

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      .+...+..+...+...|++++|+.+|+++.+.. +.+...+..++.++...|++++|..+++++.+.. +.+..++..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            456677888999999999999999999998874 4466677788889999999999999999999875 45788899999


Q ss_pred             HHHHhhC-CHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           84 DMYAKCG-SLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        84 ~~~~~~g-~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ..+...| ++++|.+.|++..+   .+..+|..+...+...|++++|...|+++.+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999998764   356789999999999999999999999999875 445566777889999999999


Q ss_pred             HHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-----------CCCcHHHHHHHHHHHhhcCCHHH
Q 043124          160 EGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-----------FQPNAVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       160 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----------~~p~~~~~~~l~~~~~~~~~~~~  228 (331)
                      +|...+++..+..  +.+...+..+...+...|++++|...+++.-           ...+...+..+..++...|++++
T Consensus       177 ~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          177 LAERFFSQALSIA--PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhC--CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            9999999998332  4457889999999999999999999987531           12345788899999999999999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHH
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIY  308 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~  308 (331)
                      |...++++++..|++...+..++.+|.+.|++++|...+++..                           ...|+++..+
T Consensus       255 A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al---------------------------~~~p~~~~~~  307 (330)
T 3hym_B          255 ALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTAL---------------------------GLRRDDTFSV  307 (330)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTT---------------------------TTCSCCHHHH
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHH---------------------------ccCCCchHHH
Confidence            9999999999999999999999999999999999999999875                           3457788888


Q ss_pred             HHHHHHH
Q 043124          309 SSLSKLD  315 (331)
Q Consensus       309 ~~l~~l~  315 (331)
                      ..++..+
T Consensus       308 ~~l~~~~  314 (330)
T 3hym_B          308 TMLGHCI  314 (330)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8888876

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=2e-20  Score=158.22  Aligned_cols=308  Identities=12%  Similarity=0.050  Sum_probs=201.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      |+..|..+...+...|++++|+..|+++.+.. +.+..++..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45667778888888888888888888887764 3466777788888888888888888888887764 335677778888


Q ss_pred             HHHhhCCHHHHHHHHhhcCCCC------hhhHHHH------------HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLREKN------LFCWNSI------------IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFI  146 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~~------~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  146 (331)
                      ++...|++++|...|++..+.+      ...+..+            ...+...|++++|.+.++++.+.. +.+...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            8888888888888888775432      2233333            467777788888888888877664 44566777


Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHH----------
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWG----------  214 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~----------  214 (331)
                      .+...+...|++++|...++.+.+.  .+.+...+..+...+...|++++|...+++. ...|+ ...+.          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKL--KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT--CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHH
Confidence            7777777788888888888777732  1345667777777777777777777777653 22232 22222          


Q ss_pred             --HHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch----HHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeC
Q 043124          215 --ALLGGCKLHRNLEIAHIAVNELMILEPNNSGY----CTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEME  288 (331)
Q Consensus       215 --~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~----~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  288 (331)
                        .+...+...|++++|...++++.+..|++...    +..++.++...|++++|...+++..+..  |+ ....+...+
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~-~~~~~~~~~  313 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PD-NVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-CHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cc-cHHHHHHHH
Confidence              12344666777777777777777766665432    3446666777777777777777766542  22 110000000


Q ss_pred             CEE----------EEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          289 RKV----------YQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       289 ~~~----------~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      ...          ..+......+|+++.+...+..++..+++
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~  355 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLKQ  355 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Confidence            000          00000016678888888888888877765

>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=99.89  E-value=7e-21  Score=162.01  Aligned_cols=262  Identities=10%  Similarity=-0.050  Sum_probs=221.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            46678899999999999999999999999875 4577889999999999999999999999999985 457889999999


Q ss_pred             HHHhhCCHHHHHHHHhhcCCC---ChhhHHH---------------HHHHHHhCCCHHHHHHHHHHHHHcCCCC-cHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLREK---NLFCWNS---------------IIEGLAVHGFAHEALAMFDRMIYENVEP-NGVTF  145 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~---------------li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~  145 (331)
                      +|...|++++|.+.|+++.+.   +...+..               .+..+...|++++|...|+++.+..... +..++
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            999999999999999987642   2222221               1333348899999999999999874221 57888


Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhc
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLH  223 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~  223 (331)
                      ..+...+...|++++|...|+++.+..  +.+...+..+...+...|++++|...+++. ...| +...+..+..++...
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            899999999999999999999988432  445788999999999999999999999874 3344 578889999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCC-----------cchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          224 RNLEIAHIAVNELMILEPNN-----------SGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      |++++|...++++++..|++           ...|..++.+|...|++++|..++++.
T Consensus       299 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            99999999999999988776           688899999999999999999888743

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=5.8e-21  Score=162.51  Aligned_cols=261  Identities=8%  Similarity=-0.072  Sum_probs=217.6

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      .+...|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|+..|+++.+.. +.+..++..+.
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            456678999999999999999999999999875 4578899999999999999999999999999985 45688999999


Q ss_pred             HHHHhhCCHHHHHHHHhhcCCCC-------------hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC--cHHHHHHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLREKN-------------LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEP--NGVTFISV  148 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~~~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~l  148 (331)
                      .+|...|++++|.+.|+++.+.+             ...+..+...+...|++++|.+.|+++.+.+ +.  +..++..+
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l  219 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHH
Confidence            99999999999999999886422             1233445889999999999999999999875 33  68889999


Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCH
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNL  226 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  226 (331)
                      ...+...|++++|...|+++.+..  +.+..+|..+..+|...|++++|+..+++. ...| +..++..+..++...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            999999999999999999998442  446789999999999999999999999874 3445 478899999999999999


Q ss_pred             HHHHHHHHHHHhcCCC------------CcchHHHHHHHHHhcCCchHHHHHHHH
Q 043124          227 EIAHIAVNELMILEPN------------NSGYCTLLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       227 ~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  269 (331)
                      ++|...++++++..|+            +...+..+..++...|+.+.+..+.++
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999997765            367788999999999999988887765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.88  E-value=1.1e-20  Score=157.97  Aligned_cols=262  Identities=8%  Similarity=-0.053  Sum_probs=221.9

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|..+...+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            55667888999999999999999999998874 4477888899999999999999999999999985 457888999999


Q ss_pred             HHHhhCCHHHHHHHHhhcCCC---ChhhHHHH--------------HH-HHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLREK---NLFCWNSI--------------IE-GLAVHGFAHEALAMFDRMIYENVEPNGVTFI  146 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l--------------i~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  146 (331)
                      ++...|++++|.+.|+++.+.   +...+..+              .. .+...|++++|.+.++++.+.. +.+...+.
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  176 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHA  176 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHH
Confidence            999999999999999887643   23334333              33 4778899999999999999875 45788889


Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcC
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHR  224 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~  224 (331)
                      .+...+...|++++|...++++.+..  +.+...+..+...+...|++++|...+++. ...| +...+..+...+...|
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g  254 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMS  254 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999999998432  445788999999999999999999999874 2334 5788889999999999


Q ss_pred             CHHHHHHHHHHHHhcCCC------------CcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          225 NLEIAHIAVNELMILEPN------------NSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       225 ~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++++|.+.+++++...|.            +...+..+..++.+.|++++|..++++..
T Consensus       255 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          255 QYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             CHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             cHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999999999999998888            67888999999999999999999987543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.87  E-value=5.4e-20  Score=156.50  Aligned_cols=289  Identities=12%  Similarity=0.054  Sum_probs=222.1

Q ss_pred             HHHhCCChhHHHH-HHHHHHHCCCC-C--CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           15 CYSQNKQFREALD-AFNEMKNSGIS-P--DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        15 ~~~~~~~~~~a~~-~~~~m~~~~~~-p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      ++...|++++|.+ .|++....... |  +...+..+...+...|++++|...++++.+.. +.+..++..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3445678888888 88766543211 1  34668889999999999999999999999875 457888999999999999


Q ss_pred             CHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH---------------HHHHH
Q 043124           91 SLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFIS---------------VLSAC  152 (331)
Q Consensus        91 ~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~---------------ll~~~  152 (331)
                      ++++|.+.|+++.+   .+..++..++..+...|++++|.+.++++.+... .+...+..               .+..+
T Consensus       113 ~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          113 QELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTP-AYAHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST-TTGGGCC---------------CTTHHH
T ss_pred             CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            99999999997753   4678999999999999999999999999998742 22222211               23334


Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHH
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      ...|++++|...|+++.+...-.++..++..+...|...|++++|+..+++. ...| +...+..+...+...|++++|.
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHH
Confidence            4899999999999999854322225788999999999999999999999874 2344 5788999999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHH
Q 043124          231 IAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSS  310 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~  310 (331)
                      ..++++++..|++...+..++.+|.+.|++++|...+++..+......  +              .....+|....++..
T Consensus       272 ~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~--~--------------~~~~~~~~~~~~~~~  335 (368)
T 1fch_A          272 AAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSR--G--------------PRGEGGAMSENIWST  335 (368)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC----------------------CCCCCHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCC--C--------------ccccccchhhHHHHH
Confidence            999999999999999999999999999999999999999986532211  0              001335677889999


Q ss_pred             HHHHHHHHHhc
Q 043124          311 LSKLDEQLKLA  321 (331)
Q Consensus       311 l~~l~~~~~~~  321 (331)
                      ++.++..+++.
T Consensus       336 l~~~~~~~g~~  346 (368)
T 1fch_A          336 LRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHTCG
T ss_pred             HHHHHHHhCCh
Confidence            99999887654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=5.2e-20  Score=163.52  Aligned_cols=263  Identities=10%  Similarity=-0.008  Sum_probs=202.2

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|......+.+.|++++|+..|+++.+.+  |+...|..+..++...|++++|+..++++++.+ +.+..++..++.
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~   81 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH
Confidence            34567777888889999999999999998864  688888889999999999999999999988875 446778888899


Q ss_pred             HHHhhCCHHHHHHHHhhcCCCC----------------------------------------------------------
Q 043124           85 MYAKCGSLDRSLLVFFKLREKN----------------------------------------------------------  106 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~~----------------------------------------------------------  106 (331)
                      +|.+.|++++|...|+++.+.+                                                          
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            9999999999998887663211                                                          


Q ss_pred             ------------------------hhhHHHHHHHHHh---CCCHHHHHHHHHHHHH-----cCC--------CCcHHHHH
Q 043124          107 ------------------------LFCWNSIIEGLAV---HGFAHEALAMFDRMIY-----ENV--------EPNGVTFI  146 (331)
Q Consensus       107 ------------------------~~~~~~li~~~~~---~~~~~~a~~~~~~m~~-----~~~--------~p~~~~~~  146 (331)
                                              ...+......+..   .|++++|...|+++.+     ...        +.+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                    2223333333333   7888888888888877     311        22345667


Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcC
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHR  224 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~  224 (331)
                      .+...+...|++++|...|+.+.+.   .|+...+..+...+...|++++|...+++. ...| +...+..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIEL---FPRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh---CccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhC
Confidence            7778888888888888888888733   233777788888888888888888888763 3333 4667777788888888


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          225 NLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       225 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ++++|...++++++..|.+...+..++.+|...|++++|...++++.+.
T Consensus       319 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  367 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRK  367 (514)
T ss_dssp             CTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888887753

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=1.5e-19  Score=160.46  Aligned_cols=267  Identities=10%  Similarity=-0.049  Sum_probs=225.5

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC--------
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDI--------   74 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------   74 (331)
                      .||..+|..+..++.+.|++++|+..|+++.+.+ +.+..++..+..++...|++++|...|+++.+.+...        
T Consensus        36 ~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  114 (514)
T 2gw1_A           36 KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPML  114 (514)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHH
T ss_pred             CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHH
Confidence            3788999999999999999999999999999875 4467889999999999999999999999988765211        


Q ss_pred             ----------------------------------------------------------------------chhHHHHHHH
Q 043124           75 ----------------------------------------------------------------------DVYIGSALVD   84 (331)
Q Consensus        75 ----------------------------------------------------------------------~~~~~~~l~~   84 (331)
                                                                                            +...+..+..
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence                                                                                  1222333333


Q ss_pred             HHHh---hCCHHHHHHHHhhcCC----------------C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Q 043124           85 MYAK---CGSLDRSLLVFFKLRE----------------K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVT  144 (331)
Q Consensus        85 ~~~~---~g~~~~a~~~~~~~~~----------------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  144 (331)
                      .+..   .|++++|...|+++.+                + +..++..++..+...|++++|...|+++.+.+  |+...
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~  272 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNS  272 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHH
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHH
Confidence            3443   7999999999987655                1 34578899999999999999999999999875  33888


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhh
Q 043124          145 FISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKL  222 (331)
Q Consensus       145 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~  222 (331)
                      +..+...+...|++++|...++.+....  +.+...+..+...+...|++++|...+++. ...| +...+..+...+..
T Consensus       273 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  350 (514)
T 2gw1_A          273 YIYMALIMADRNDSTEYYNYFDKALKLD--SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYR  350 (514)
T ss_dssp             HHHHHHHHHTSSCCTTGGGHHHHHHTTC--TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhhcC--cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHH
Confidence            8889999999999999999999998332  445778899999999999999999999874 2344 46788888889999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          223 HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       223 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .|++++|...++++.+..|++...+..++.+|.+.|++++|...++++.+..
T Consensus       351 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  402 (514)
T 2gw1_A          351 ENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELE  402 (514)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999987653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.85  E-value=1.3e-19  Score=154.08  Aligned_cols=263  Identities=12%  Similarity=0.032  Sum_probs=207.6

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHH
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEG  116 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  116 (331)
                      +...+..+...+.+.|++++|+..|+++++.. +.+..++..+..+|...|++++|.+.|++..+   .+..+|..++.+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            44558889999999999999999999999985 55788999999999999999999999998764   357799999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCc-----------HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPN-----------GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMV  185 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  185 (331)
                      |...|++++|...|+++.+.+  |+           ...+..+...+...|++++|...|+++.+...-.++..++..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            999999999999999998863  32           22233457788999999999999999995432222688999999


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHH
Q 043124          186 DLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEV  263 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  263 (331)
                      ..|...|++++|++.+++. ...| +..++..+..++...|++++|...++++++..|++...+..++.+|.+.|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999874 2334 5888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          264 TKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       264 ~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      ...+++..+......  + ..            .......+..++..++.++..+++
T Consensus       301 ~~~~~~al~~~~~~~--~-~~------------~~~~~~~~~~~~~~l~~~~~~~g~  342 (365)
T 4eqf_A          301 VSNFLTALSLQRKSR--N-QQ------------QVPHPAISGNIWAALRIALSLMDQ  342 (365)
T ss_dssp             HHHHHHHHHHHHCC---------------------------CHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCcccC--C-Cc------------ccchhhhHHHHHHHHHHHHHHcCc
Confidence            999999986542211  0 00            001112245778888888877664

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.85  E-value=9.8e-19  Score=146.22  Aligned_cols=255  Identities=13%  Similarity=0.019  Sum_probs=217.0

Q ss_pred             CchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC-CchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            4 RDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG-ALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         4 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      .+...+..++..+...|++++|..+++++.+.. +.+...+..+...+...| ++++|...++++.+.. +.+..++..+
T Consensus        54 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l  131 (330)
T 3hym_B           54 FHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAY  131 (330)
T ss_dssp             TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHH
T ss_pred             CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHH
Confidence            455667778899999999999999999999874 446788899999999999 9999999999998875 4467889999


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ..++...|++++|.+.|++..+   .+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus       132 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  210 (330)
T 3hym_B          132 GHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWK  210 (330)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHH
Confidence            9999999999999999998764   345778889999999999999999999999874 556788899999999999999


Q ss_pred             HHHHHHHhhhhcCC-------CCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHH
Q 043124          160 EGRRRFLSMTCGYS-------ITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       160 ~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      +|...+++..+...       .+.....+..+..++...|++++|...+++. ...| +...+..+..++...|++++|.
T Consensus       211 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~  290 (330)
T 3hym_B          211 TAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAV  290 (330)
T ss_dssp             HHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHH
Confidence            99999999874221       1334678899999999999999999999874 2333 5678888999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHH-HhcCCch
Q 043124          231 IAVNELMILEPNNSGYCTLLLNMY-AEVSRWA  261 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  261 (331)
                      +.++++++..|++...+..+..++ ...|+.+
T Consensus       291 ~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          291 DYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            999999999999999999999888 4566544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.84  E-value=3e-19  Score=146.88  Aligned_cols=245  Identities=10%  Similarity=0.028  Sum_probs=189.9

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCH--hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQ--VTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      |+.....|++..|+..+++....  .|+.  .....+.++|...|+++.|+..++.   . -+|+..++..+...+...|
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCC
Confidence            56677789999999888776543  3333  3556677888899999988876644   2 3567778888888899999


Q ss_pred             CHHHHHHHHhhcC----CC-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           91 SLDRSLLVFFKLR----EK-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        91 ~~~~a~~~~~~~~----~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      +.++|.+.++++.    .| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|...|
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999998764    23 456777888889999999999999887      467778888888999999999999999


Q ss_pred             HhhhhcCCCCCcHhH---HHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          166 LSMTCGYSITPEVEH---YGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      +++.+.   .|+...   ...++..+...|++++|..+|+++-  ...+...++.+..++...|++++|...++++++.+
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            998843   344221   1223344445588999999988752  34467888888888999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHhcCCchH-HHHHHHHHHh
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAE-VTKIRVAMKE  272 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~  272 (331)
                      |+++.++..++..+...|+.++ +.++++++.+
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            9999999999999999999876 5688888774

>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=99.84  E-value=3.2e-18  Score=152.92  Aligned_cols=263  Identities=11%  Similarity=0.021  Sum_probs=217.6

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|++.++++++.+ +.+..++..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4567778888889999999999999888864 4477888888888888999999999999888875 4467788888888


Q ss_pred             HHhhCCHHHHHHHHhhcC--------------------------------------------------------------
Q 043124           86 YAKCGSLDRSLLVFFKLR--------------------------------------------------------------  103 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~--------------------------------------------------------------  103 (331)
                      +...|++++|...|+.+.                                                              
T Consensus       103 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSS  182 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHH
Confidence            888888888887664331                                                              


Q ss_pred             -----------------------------------------------C--CC--------hhhHHHHHHHHHhCCCHHHH
Q 043124          104 -----------------------------------------------E--KN--------LFCWNSIIEGLAVHGFAHEA  126 (331)
Q Consensus       104 -----------------------------------------------~--~~--------~~~~~~li~~~~~~~~~~~a  126 (331)
                                                                     +  |+        ..++..+...+...|++++|
T Consensus       183 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A  262 (537)
T 3fp2_A          183 VNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDA  262 (537)
T ss_dssp             SCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHH
Confidence                                                           1  11        12456666778889999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-C
Q 043124          127 LAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-K  205 (331)
Q Consensus       127 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~  205 (331)
                      ...|+++.+.  .|+...+..+...+...|++++|...|+++.+..  +.+..++..+...+...|++++|...+++. .
T Consensus       263 ~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  338 (537)
T 3fp2_A          263 QVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS  338 (537)
T ss_dssp             HHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999986  4557888889999999999999999999988433  345778999999999999999999999874 2


Q ss_pred             CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          206 FQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       206 ~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      ..| +...+..+...+...|++++|...++++++..|++...+..++.++...|++++|...++++.+..
T Consensus       339 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          339 LNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            334 467788888999999999999999999999999999999999999999999999999999987654

>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=2.6e-18  Score=153.50  Aligned_cols=267  Identities=10%  Similarity=0.002  Sum_probs=216.4

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh------------
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQI------------   70 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------   70 (331)
                      +.+..+|..+..+|.+.|++++|++.|+++.+.+ +.+..++..+..++...|++++|...|+.+...            
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  134 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPML  134 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHH
Confidence            3577889999999999999999999999998875 446788889999999999999998876422000            


Q ss_pred             --------------------------------------------------------------------------------
Q 043124           71 --------------------------------------------------------------------------------   70 (331)
Q Consensus        71 --------------------------------------------------------------------------------   70 (331)
                                                                                                      
T Consensus       135 ~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  214 (537)
T 3fp2_A          135 ERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVA  214 (537)
T ss_dssp             HHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHH
Confidence                                                                                            


Q ss_pred             ---------------CCCCc--------hhHHHHHHHHHHhhCCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHH
Q 043124           71 ---------------GFDID--------VYIGSALVDMYAKCGSLDRSLLVFFKLRE--KNLFCWNSIIEGLAVHGFAHE  125 (331)
Q Consensus        71 ---------------~~~~~--------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~  125 (331)
                                     ...|+        ..++..+...+...|++++|...|++..+  |+..+|..+...+...|++++
T Consensus       215 ~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  294 (537)
T 3fp2_A          215 NDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQE  294 (537)
T ss_dssp             HHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHH
Confidence                           01122        22455666788889999999999998763  567789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 043124          126 ALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-  204 (331)
Q Consensus       126 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-  204 (331)
                      |...|+++.+.. +.+..++..+...+...|++++|...|+++.+..  +.+...+..+...+...|++++|...+++. 
T Consensus       295 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          295 FFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999875 5568889999999999999999999999998432  334678888999999999999999999874 


Q ss_pred             CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch------HHHHHHHHHhc----------CCchHHHHHH
Q 043124          205 KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY------CTLLLNMYAEV----------SRWAEVTKIR  267 (331)
Q Consensus       205 ~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~------~~~l~~~~~~~----------g~~~~a~~~~  267 (331)
                      ...| +...+..+...+...|++++|...++++++..|++...      +..+..++.+.          |++++|...+
T Consensus       372 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~  451 (537)
T 3fp2_A          372 LKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLL  451 (537)
T ss_dssp             HHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHH
T ss_pred             HhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHH
Confidence            2334 46688888899999999999999999999976654433      33456778888          9999999999


Q ss_pred             HHHHhc
Q 043124          268 VAMKEL  273 (331)
Q Consensus       268 ~~m~~~  273 (331)
                      ++..+.
T Consensus       452 ~~a~~~  457 (537)
T 3fp2_A          452 TKACEL  457 (537)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998854

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=8.1e-18  Score=138.35  Aligned_cols=246  Identities=11%  Similarity=0.027  Sum_probs=199.6

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC-chhHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDI-DVYIGSALVDMY   86 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~   86 (331)
                      ..-.+.++|...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++.+.+..| +...+..+..++
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~  111 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIY  111 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHH
Confidence            445678999999999999987755   2 35677888899999999999999999999999876434 566777888999


Q ss_pred             HhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH---HHHHHHHhccCcHHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTF---ISVLSACTHAGLVEEGRR  163 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~ll~~~~~~~~~~~a~~  163 (331)
                      ...|++++|++.+++  ..+..++..++..+.+.|++++|.+.|+++.+.+  |+....   ..++..+...|++++|..
T Consensus       112 ~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~  187 (291)
T 3mkr_A          112 FYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYY  187 (291)
T ss_dssp             HHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHH
T ss_pred             HHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHH
Confidence            999999999999999  5678899999999999999999999999999874  443221   223344556699999999


Q ss_pred             HHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHH-HHHHHHHHHhcC
Q 043124          164 RFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEI-AHIAVNELMILE  240 (331)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~  240 (331)
                      +|+++.+..  +.+...++.+..++.+.|++++|...+++. ...| +..++..++..+...|+.++ +.++++++++.+
T Consensus       188 ~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          188 IFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHHHS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            999999543  567889999999999999999999999973 4455 57788899999989999865 679999999999


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHH
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIR  267 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~  267 (331)
                      |+++.+.    ....+.+.++++..-|
T Consensus       266 P~~~~~~----d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          266 RSHPFIK----EYRAKENDFDRLVLQY  288 (291)
T ss_dssp             TTCHHHH----HHHHHHHHHHHHHHHH
T ss_pred             CCChHHH----HHHHHHHHHHHHHHHc
Confidence            9976553    3455666666655433

>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=99.81  E-value=8.5e-18  Score=140.30  Aligned_cols=262  Identities=12%  Similarity=0.026  Sum_probs=208.9

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHH
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEG  116 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  116 (331)
                      +...+..+...+...|++++|..+++++.+.. +.+..++..+..++...|++++|.+.|+++.+   .+..++..++..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   98 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVS   98 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHH
Confidence            44566778888999999999999999999885 45778899999999999999999999998764   366789999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH--------------HH-HHhccCcHHHHHHHHHhhhhcCCCCCcHhHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISV--------------LS-ACTHAGLVEEGRRRFLSMTCGYSITPEVEHY  181 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  181 (331)
                      +...|++++|.+.++++.+.. +.+...+..+              .. .+...|++++|...++++.+..  +.+...+
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  175 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN--PNDAQLH  175 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS--TTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC--CCCHHHH
Confidence            999999999999999998864 2222333222              22 3788999999999999998442  4467889


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCC
Q 043124          182 GCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSR  259 (331)
Q Consensus       182 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  259 (331)
                      ..+...+...|++++|.+.+++. ...| +...+..+...+...|++++|...++++++..|++...+..++.+|...|+
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcc
Confidence            99999999999999999999874 2334 578889999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          260 WAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       260 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      +++|...+++..+......   ..            ............+..++.++..+++
T Consensus       256 ~~~A~~~~~~a~~~~~~~~---~~------------~~~~~~~~~~~~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGT---TP------------TGEASREATRSMWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSC---C-----------------CCTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCCccc---cc------------cccchhhcCHHHHHHHHHHHHhcCC
Confidence            9999999999986543221   00            0000112256788888888876654

>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=99.80  E-value=1.2e-19  Score=153.37  Aligned_cols=233  Identities=12%  Similarity=0.069  Sum_probs=119.1

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ..+|..|+.++.+.|++++|++.|.+      .+|..+|..++.++...|++++|+.+++...+.  .+++.+.+.++.+
T Consensus        32 ~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~  103 (449)
T 1b89_A           32 PAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFA  103 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHH
Confidence            35899999999999999999999965      357889999999999999999999988877764  4567889999999


Q ss_pred             HHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           86 YAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      |.+.|+++++.++++   .|+..+|+.++..|...|++++|...|..+         ..|..++.++.+.|++++|.+.+
T Consensus       104 Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~  171 (449)
T 1b89_A          104 LAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGA  171 (449)
T ss_dssp             -----CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHH
Confidence            999999999988875   477789999999999999999999999987         36889999999999999999999


Q ss_pred             HhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc
Q 043124          166 LSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG  245 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  245 (331)
                      .++.       ++.+|..++.+|+..|+++.|......+...|+.  ...++..|.+.|++++|..+++..+..+|....
T Consensus       172 ~KA~-------~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~  242 (449)
T 1b89_A          172 RKAN-------STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADE--LEELINYYQDRGYFEELITMLEAALGLERAHMG  242 (449)
T ss_dssp             HHHT-------CHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHH--HHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHH
T ss_pred             HHcC-------CchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhh--HHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHH
Confidence            9883       6789999999999999999997777666656654  446888899999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCCchHHHHHHH
Q 043124          246 YCTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       246 ~~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      .|..|..+|++- +.++..+.++
T Consensus       243 ~ftel~il~~ky-~p~k~~ehl~  264 (449)
T 1b89_A          243 MFTELAILYSKF-KPQKMREHLE  264 (449)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-CHHHHHHHHH
Confidence            999998888876 3344444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.80  E-value=5.3e-17  Score=137.13  Aligned_cols=268  Identities=13%  Similarity=0.014  Sum_probs=224.8

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC--CchhHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFD--IDVYIGS   80 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~   80 (331)
                      +.+..+|..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++.+....  .+...+.
T Consensus        34 p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  112 (359)
T 3ieg_A           34 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAES  112 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHH
Confidence            3467889999999999999999999999999874 346788999999999999999999999999886420  3455555


Q ss_pred             HH------------HHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Q 043124           81 AL------------VDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTF  145 (331)
Q Consensus        81 ~l------------~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  145 (331)
                      .+            ...+...|++++|.+.|+++.+   .+..++..+...+...|++++|...++++.+.. +.+..++
T Consensus       113 ~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  191 (359)
T 3ieg_A          113 QLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAF  191 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            55            5889999999999999998763   467789999999999999999999999999874 5678889


Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHH------------HHHHHHHHcCCHHHHHHHHHhC-CCCCc-H-
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYG------------CMVDLLSKAGLLEDALELIRSS-KFQPN-A-  210 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~-  210 (331)
                      ..+...+...|++++|...|+...+..  +.+...+.            .+...+.+.|++++|...+++. ...|+ . 
T Consensus       192 ~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~  269 (359)
T 3ieg_A          192 YKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAE  269 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchH
Confidence            999999999999999999999998443  22333332            2366799999999999999874 23344 2 


Q ss_pred             ---HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          211 ---VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       211 ---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                         ..+..+..++...|++++|...++++++..|+++..+..++.+|...|++++|...+++..+..
T Consensus       270 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          270 YTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence               2345577789999999999999999999999999999999999999999999999999998754

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=8.3e-18  Score=135.49  Aligned_cols=225  Identities=12%  Similarity=0.033  Sum_probs=111.5

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC--Cc----hhHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFD--ID----VYIG   79 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   79 (331)
                      ...|..+...+...|++++|+..|+++.+..  .+...+..+..++...|++++|...++++.+....  ++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3456666666667777777777776666654  55666666666666667777777666666554211  01    3445


Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ..+..++...|++++|...|++..+.+..     ...+...|++++|...++++.... +.+...+..+...+...|+++
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  156 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWP  156 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHH
Confidence            55555555555555555555544321111     122333444555555555544432 222334444444444555555


Q ss_pred             HHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 043124          160 EGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELM  237 (331)
Q Consensus       160 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  237 (331)
                      +|...|++..+..  +.+...+..+...+...|++++|...+++. ...| +...+..+..++...|++++|...+++++
T Consensus       157 ~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          157 NAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            5555555544221  223344444444444444444444444432 1112 23444444444444444444444444444


Q ss_pred             hcC
Q 043124          238 ILE  240 (331)
Q Consensus       238 ~~~  240 (331)
                      +..
T Consensus       235 ~~~  237 (258)
T 3uq3_A          235 TKD  237 (258)
T ss_dssp             HHH
T ss_pred             HhC
Confidence            433

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.80  E-value=8.2e-20  Score=166.36  Aligned_cols=151  Identities=16%  Similarity=0.221  Sum_probs=101.0

Q ss_pred             CCCHhhHHHHHHHHHccCCchHHHHHHHHHH---HhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC----CCChhhH
Q 043124           38 SPDQVTMATVLSACAHLGALDLGREIHLYVM---QIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR----EKNLFCW  110 (331)
Q Consensus        38 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~  110 (331)
                      ..-..||++||++|++.|++++|.++|++|.   +.|+.||..+||+||++|++.|++++|.++|++|.    .||+.||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            3344567777777777777777777776654   34566777777777777777777777777777765    3567777


Q ss_pred             HHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC----CcHhHHHHHH
Q 043124          111 NSIIEGLAVHGF-AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT----PEVEHYGCMV  185 (331)
Q Consensus       111 ~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~l~  185 (331)
                      |++|.++++.|+ .++|.++|++|.+.|+.||..+|++++.++.+.    ..++..+++...+..+    |...+...|.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVKPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGCCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhCcccCCCCCCcccccchHHHH
Confidence            777777777776 467889999999999999999999888665554    3444445554222222    1244555566


Q ss_pred             HHHHHcC
Q 043124          186 DLLSKAG  192 (331)
Q Consensus       186 ~~~~~~~  192 (331)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            6666555

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=3.6e-17  Score=131.71  Aligned_cols=220  Identities=10%  Similarity=-0.025  Sum_probs=192.5

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---C-------hhhH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---N-------LFCW  110 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-------~~~~  110 (331)
                      ...+..+...+...|++++|...++++.+..  .+..++..+..++...|++++|.+.|++..+.   +       ..+|
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4578889999999999999999999999987  78899999999999999999999999987642   1       5789


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH
Q 043124          111 NSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK  190 (331)
Q Consensus       111 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  190 (331)
                      ..+...+...|++++|...|+++.+.  .|+.       ..+...|++++|...++.+....  +.+...+..+...+..
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN--PEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC--HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHH
Confidence            99999999999999999999999986  3553       34666789999999999998321  3346788889999999


Q ss_pred             cCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHH
Q 043124          191 AGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       191 ~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      .|++++|...+++. ...| +...+..+..++...|++++|...++++++..|++...+..++.++.+.|++++|...++
T Consensus       152 ~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            99999999999874 2333 578889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhc
Q 043124          269 AMKEL  273 (331)
Q Consensus       269 ~m~~~  273 (331)
                      +..+.
T Consensus       232 ~a~~~  236 (258)
T 3uq3_A          232 AARTK  236 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.77  E-value=5.1e-17  Score=127.81  Aligned_cols=196  Identities=10%  Similarity=-0.026  Sum_probs=147.0

Q ss_pred             CCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 043124           73 DIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVL  149 (331)
Q Consensus        73 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  149 (331)
                      +++...+..+...+.+.|++++|...|++..+   .+...+..+..++.+.|++++|+..|++..+.+ |.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45666777778888888888888888877654   255677788888888888888888888888764 44567777778


Q ss_pred             HHHhcc-----------CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHH
Q 043124          150 SACTHA-----------GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIWGALL  217 (331)
Q Consensus       150 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~  217 (331)
                      ..+...           |++++|+..|++..+..  +-+...+..+..++...|++++|+..|++. ....+...+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN--PRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            888888           99999999999988432  334778888899999999999999999863 1126788888999


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          218 GGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      .++...|++++|...++++++..|++...+..+..++.+.|++++|...+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999998764

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.77  E-value=4.9e-19  Score=149.64  Aligned_cols=218  Identities=13%  Similarity=0.191  Sum_probs=95.8

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHH
Q 043124           18 QNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLL   97 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~   97 (331)
                      +.|++++|.++++++      +++.+|..|+.++.+.|++++|++.|.+      .+|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            567899999999998      2345999999999999999999999964      2577789999999999999999999


Q ss_pred             HHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC
Q 043124           98 VFFKLRE--KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT  175 (331)
Q Consensus        98 ~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  175 (331)
                      .++...+  +++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|..+|..+.      
T Consensus        83 yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~------  149 (449)
T 1b89_A           83 YLQMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS------  149 (449)
T ss_dssp             --------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHTT------
T ss_pred             HHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHhh------
Confidence            7776654  356789999999999999999998884       3777899999999999999999999999873      


Q ss_pred             CcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          176 PEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       176 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                          .|..++.++.+.|++++|.+.+++.+   ++.+|..++.+|...|+++.|......+. ..|+.   ...++..|.
T Consensus       150 ----n~~~LA~~L~~Lg~yq~AVea~~KA~---~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~---l~~lv~~Ye  218 (449)
T 1b89_A          150 ----NFGRLASTLVHLGEYQAAVDGARKAN---STRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADE---LEELINYYQ  218 (449)
T ss_dssp             ----CHHHHHHHHHTTTCHHHHHHHHHHHT---CHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHH---HHHHHHHHH
T ss_pred             ----hHHHHHHHHHHhccHHHHHHHHHHcC---CchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhh---HHHHHHHHH
Confidence                68999999999999999999999984   78999999999999999999977665432 55553   456999999


Q ss_pred             hcCCchHHHHHHHHHH
Q 043124          256 EVSRWAEVTKIRVAMK  271 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~  271 (331)
                      +.|++++|..+++...
T Consensus       219 k~G~~eEai~lLe~aL  234 (449)
T 1b89_A          219 DRGYFEELITMLEAAL  234 (449)
T ss_dssp             HTTCHHHHHHHHHHHT
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            9999999999999976

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.77  E-value=5.9e-19  Score=160.82  Aligned_cols=122  Identities=11%  Similarity=0.075  Sum_probs=108.9

Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcC-------CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLR-------EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFIS  147 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  147 (331)
                      -..+|++||++|++.|++++|.++|.+|.       .||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            35689999999999999999999997763       57999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCc-HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          148 VLSACTHAGL-VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       148 ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      +|.++++.|+ .++|.++|++|. ..|+.||..+|++++....+.+-++.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~-~kG~~PD~vtY~~ll~~~eR~~vL~~V  255 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMS-QEGLKLQALFTAVLLSEEDRATVLKAV  255 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHH-HHTCCSHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHH-HcCCCCChhhcccccChhhHHHHHHHH
Confidence            9999999998 478999999999 779999999999988766665444433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.76  E-value=1.3e-16  Score=129.69  Aligned_cols=248  Identities=11%  Similarity=-0.038  Sum_probs=188.4

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc--hhHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID--VYIGSALVD   84 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~   84 (331)
                      ..+......+...|++++|+..|++..+.. +.+...+..+..++...|++++|+..++++.+.+..++  ..++..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            445667788899999999999999999874 33566888899999999999999999999988432222  234788999


Q ss_pred             HHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      ++...|++++|.+.|++..+   .+..+|..+...+...|++++|...|++..+.. +.+...+..+...+...+++++|
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999987764   356789999999999999999999999998763 44566677666344455699999


Q ss_pred             HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC---HHHHHHHHHhCC----CCCc------HHHHHHHHHHHhhcCCHHH
Q 043124          162 RRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL---LEDALELIRSSK----FQPN------AVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~----~~p~------~~~~~~l~~~~~~~~~~~~  228 (331)
                      ...|+++.+..  +.+...+..+...+...|+   +++|...+++.-    ..|+      ...+..+...+...|++++
T Consensus       162 ~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          162 DSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            99999988432  3346677778888888887   777777776521    1233      2567778888899999999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          229 AHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       229 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      |.+.++++++.+|++......+.......+
T Consensus       240 A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          240 ADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            999999999999998888776665554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.76  E-value=1.8e-16  Score=129.01  Aligned_cols=243  Identities=12%  Similarity=-0.067  Sum_probs=194.6

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCC---CCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           16 YSQNKQFREALDAFNEMKNSGIS---PDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        16 ~~~~~~~~~a~~~~~~m~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      ....|++++|+..|+++.+....   .+..++..+..++...|++++|...++++.+.. +.+..++..+..+|...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            34568899999999999986321   245678889999999999999999999999985 45788999999999999999


Q ss_pred             HHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124           93 DRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus        93 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ++|.+.|++..+   .+..++..++..+...|++++|...|+++.+..  |+.......+..+...|++++|...++...
T Consensus        94 ~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999998764   367889999999999999999999999999864  444444445556677899999999998877


Q ss_pred             hcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          170 CGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       170 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      ...  +++...+. ++..+...++.++|.+.+++. ...|+     ...+..+...+...|++++|...+++++...|++
T Consensus       172 ~~~--~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  248 (275)
T 1xnf_A          172 EKS--DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  248 (275)
T ss_dssp             HHS--CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             hcC--CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh
Confidence            443  34444444 677788889999999999874 33332     5678888889999999999999999999999986


Q ss_pred             cchHHHHHHHHHhcCCchHHHHHH
Q 043124          244 SGYCTLLLNMYAEVSRWAEVTKIR  267 (331)
Q Consensus       244 ~~~~~~l~~~~~~~g~~~~a~~~~  267 (331)
                      ...   ...++...|++++|...+
T Consensus       249 ~~~---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 FVE---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CHH---HHHHHHHHHHHHHC----
T ss_pred             HHH---HHHHHHHHHHHHhhHHHH
Confidence            544   356778889999888766

>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=99.75  E-value=2.3e-16  Score=134.17  Aligned_cols=248  Identities=9%  Similarity=0.007  Sum_probs=206.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCC-chHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGA-LDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      +...|+.+...+.+.|++++|+..|++..+.. +-+...|..+..++...|+ +++|+..++++++.. +.+..+|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            35678889999999999999999999999875 3467889999999999996 999999999999986 44788999999


Q ss_pred             HHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc-cCcHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH-AGLVE  159 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~  159 (331)
                      .++...|++++|+..|+++.+   .+..+|..+..++...|++++|+..|+++++.+ +-+...|+.+..++.. .|..+
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999998864   367889999999999999999999999999985 4578888888888888 56657


Q ss_pred             HH-----HHHHHhhhhcCCCCCcHhHHHHHHHHHHHcC--CHHHHHHHHHhCCCCCc-HHHHHHHHHHHhhcC-------
Q 043124          160 EG-----RRRFLSMTCGYSITPEVEHYGCMVDLLSKAG--LLEDALELIRSSKFQPN-AVIWGALLGGCKLHR-------  224 (331)
Q Consensus       160 ~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~p~-~~~~~~l~~~~~~~~-------  224 (331)
                      +|     +..|++..+..  +-+...|..+..++...|  ++++|++.++++...|+ ...+..+..++...|       
T Consensus       253 eA~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            77     58888887332  335778888888888888  68999998887754554 677788888887763       


Q ss_pred             --CHHHHHHHHHHH-HhcCCCCcchHHHHHHHHHhc
Q 043124          225 --NLEIAHIAVNEL-MILEPNNSGYCTLLLNMYAEV  257 (331)
Q Consensus       225 --~~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  257 (331)
                        ..++|.++++++ .+.+|.....|..+...+...
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence              358999999999 899999898988887776543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.75  E-value=4.2e-17  Score=140.30  Aligned_cols=297  Identities=13%  Similarity=0.070  Sum_probs=227.1

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHccCCchHHHHHHHHHHHh----CCCC
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPD----QVTMATVLSACAHLGALDLGREIHLYVMQI----GFDI   74 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~   74 (331)
                      .+....+......+...|++++|...|+++.+.+. .+    ..++..+...+...|+++.|...++++.+.    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            45666778888999999999999999999988742 23    356888889999999999999999987654    2122


Q ss_pred             -chhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----C----hhhHHHHHHHHHhCCC--------------------HH
Q 043124           75 -DVYIGSALVDMYAKCGSLDRSLLVFFKLREK-----N----LFCWNSIIEGLAVHGF--------------------AH  124 (331)
Q Consensus        75 -~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~li~~~~~~~~--------------------~~  124 (331)
                       ...++..+..+|...|++++|...+++..+.     +    ..++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             3567888999999999999999999877641     2    3478899999999999                    99


Q ss_pred             HHHHHHHHHHHc----CCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc----HhHHHHHHHHHHHcCCHH
Q 043124          125 EALAMFDRMIYE----NVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE----VEHYGCMVDLLSKAGLLE  195 (331)
Q Consensus       125 ~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~  195 (331)
                      +|.+.+++..+.    +..| ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999999887653    2112 2456778888999999999999999987732111112    347888899999999999


Q ss_pred             HHHHHHHhC-------CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC------cchHHHHHHHHHhcCCch
Q 043124          196 DALELIRSS-------KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN------SGYCTLLLNMYAEVSRWA  261 (331)
Q Consensus       196 ~a~~~~~~~-------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~  261 (331)
                      +|...+++.       +..+. ..++..+...+...|++++|...++++++..+..      ...+..+..+|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            999998753       11111 4567788888999999999999999998854332      456788999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhc
Q 043124          262 EVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       262 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                      +|...+++..+..-..                     ...+....++..++.++..+++.
T Consensus       325 ~A~~~~~~al~~~~~~---------------------~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          325 QAMHFAEKHLEISREV---------------------GDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHHHHT---------------------TCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHh---------------------cCCcchhHHHHHHHHHHHHhhHh
Confidence            9999999987542111                     12234456677777777777654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.75  E-value=1.9e-16  Score=124.53  Aligned_cols=196  Identities=12%  Similarity=-0.008  Sum_probs=144.1

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      +++...|..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|+..++++++.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            3577788889999999999999999999998874 4477888899999999999999999999999885 4467788889


Q ss_pred             HHHHHhh-----------CCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 043124           83 VDMYAKC-----------GSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISV  148 (331)
Q Consensus        83 ~~~~~~~-----------g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  148 (331)
                      ..++...           |++++|+..|++..+  | +...|..+..++...|++++|+..|++..+.+  .+...+..+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            9999888           888888888877653  2 45677778888888888888888888887776  567777777


Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                      ..++...|++++|+..|++..+..  +.+...+..+..++...|++++|+..+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            778888888888888888877332  334666777777777888888887777654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.75  E-value=5.5e-16  Score=126.03  Aligned_cols=229  Identities=8%  Similarity=-0.094  Sum_probs=186.6

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC--CCh----hhHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE--KNL----FCWNSII  114 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~----~~~~~li  114 (331)
                      ...+......+...|++++|+..++++.+.. +.+..++..+..+|...|++++|.+.|++..+  ++.    .+|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            4456677788899999999999999999875 34666888999999999999999999998765  232    2489999


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCH
Q 043124          115 EGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLL  194 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  194 (331)
                      ..+...|++++|++.|++..+.. +.+...+..+...+...|++++|...|++..+.  .+.+...+..+...+...+++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999874 456678889999999999999999999999833  234567777777345555699


Q ss_pred             HHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCC---HHHHHHHHHHHHhcC---CCC-----cchHHHHHHHHHhcCCch
Q 043124          195 EDALELIRSS-KFQPN-AVIWGALLGGCKLHRN---LEIAHIAVNELMILE---PNN-----SGYCTLLLNMYAEVSRWA  261 (331)
Q Consensus       195 ~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~  261 (331)
                      ++|.+.+++. ...|+ ...+..+..++...++   +++|...++++++..   |+.     ...|..++..|...|+++
T Consensus       159 ~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          159 VKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999874 34454 6777778888888888   888999999998843   442     257788999999999999


Q ss_pred             HHHHHHHHHHhc
Q 043124          262 EVTKIRVAMKEL  273 (331)
Q Consensus       262 ~a~~~~~~m~~~  273 (331)
                      +|...+++..+.
T Consensus       239 ~A~~~~~~al~~  250 (272)
T 3u4t_A          239 KADAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999999853

>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=99.73  E-value=5.5e-15  Score=120.33  Aligned_cols=223  Identities=12%  Similarity=-0.038  Sum_probs=118.5

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc----cCCchHHHHHHHHHHHhCCCCchhHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAH----LGALDLGREIHLYVMQIGFDIDVYIGS   80 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   80 (331)
                      +..++..+...+...|++++|+..|++..+.   .+...+..+...+..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4555666666666666677776666666652   234555566666666    666666666666666654   445555


Q ss_pred             HHHHHHHh----hCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 043124           81 ALVDMYAK----CGSLDRSLLVFFKLREK-NLFCWNSIIEGLAV----HGFAHEALAMFDRMIYENVEPNGVTFISVLSA  151 (331)
Q Consensus        81 ~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  151 (331)
                      .+..+|..    .+++++|.+.|++..+. +..++..+...|..    .+++++|+..|++..+.+   +...+..+...
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            55556655    55555555555544332 34445555555555    555555555555555443   22333334444


Q ss_pred             Hhc----cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhh----c
Q 043124          152 CTH----AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKL----H  223 (331)
Q Consensus       152 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~  223 (331)
                      +..    .+++++|...|++..+.                                    .+...+..+...+..    .
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~------------------------------------~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDL------------------------------------KDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT------------------------------------TCHHHHHHHHHHHHHTCSSC
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHC------------------------------------CCHHHHHHHHHHHHcCCCCC
Confidence            443    44555555555544411                                    123344444444444    5


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----cCCchHHHHHHHHHHhcC
Q 043124          224 RNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE----VSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  274 (331)
                      +++++|...++++.+.+|  ...+..+..+|..    .+++++|...+++..+.|
T Consensus       200 ~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          200 KNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            555555555555555433  3334445555555    555555555555555444

>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=99.73  E-value=4.1e-15  Score=121.08  Aligned_cols=186  Identities=9%  Similarity=-0.029  Sum_probs=155.8

Q ss_pred             chhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc----cCCchHHHHHHHHHHHhCCCCch
Q 043124            5 DIISWTTMITCYSQ----NKQFREALDAFNEMKNSGISPDQVTMATVLSACAH----LGALDLGREIHLYVMQIGFDIDV   76 (331)
Q Consensus         5 ~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   76 (331)
                      +..++..+...|..    .+++++|+..|++..+.+   +...+..+...+..    .+++++|+..+++..+.+   +.
T Consensus        37 ~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~  110 (273)
T 1ouv_A           37 ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YA  110 (273)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---Cc
Confidence            45678889999999    999999999999999875   77888899999998    999999999999999875   67


Q ss_pred             hHHHHHHHHHHh----hCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCcHHHHHH
Q 043124           77 YIGSALVDMYAK----CGSLDRSLLVFFKLREK-NLFCWNSIIEGLAV----HGFAHEALAMFDRMIYENVEPNGVTFIS  147 (331)
Q Consensus        77 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~  147 (331)
                      ..+..+...|..    .+++++|.+.|++..+. +..++..+...|..    .+++++|...|++..+.+   +...+..
T Consensus       111 ~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  187 (273)
T 1ouv_A          111 EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFN  187 (273)
T ss_dssp             HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             cHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            788899999999    99999999999987654 56788889999988    999999999999998875   4566777


Q ss_pred             HHHHHhc----cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH----cCCHHHHHHHHHh
Q 043124          148 VLSACTH----AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK----AGLLEDALELIRS  203 (331)
Q Consensus       148 ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~  203 (331)
                      +...+..    .+++++|...|++..+. +   +...+..+...|..    .+++++|.+.+++
T Consensus       188 lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~  247 (273)
T 1ouv_A          188 AGNMYHHGEGATKNFKEALARYSKACEL-E---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKK  247 (273)
T ss_dssp             HHHHHHHTCSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHH
T ss_pred             HHHHHHcCCCCCccHHHHHHHHHHHHhC-C---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHH
Confidence            8888888    89999999999998832 2   24556666666766    6777777777665

>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=99.72  E-value=1.1e-15  Score=129.97  Aligned_cols=246  Identities=9%  Similarity=0.047  Sum_probs=206.1

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC-HHHHHHHHhhcCC---CChhhHHHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS-LDRSLLVFFKLRE---KNLFCWNSIIEG  116 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~---~~~~~~~~li~~  116 (331)
                      ...|..+..++...|++++|+..++++++.. +-+..+|+.+..++...|+ +++|+..|++..+   .+..+|+.+..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3567888888999999999999999999985 4578899999999999997 9999999998874   366799999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH-cCCHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK-AGLLE  195 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  195 (331)
                      +...|++++|+..|+++++.+ +-+...|..+..++...|++++|+..|+++.+..  +-+...|+.+..++.. .|..+
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999999985 5578889999999999999999999999999432  3457889999999999 66657


Q ss_pred             HH-----HHHHHh-CCCCC-cHHHHHHHHHHHhhcC--CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC--------
Q 043124          196 DA-----LELIRS-SKFQP-NAVIWGALLGGCKLHR--NLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS--------  258 (331)
Q Consensus       196 ~a-----~~~~~~-~~~~p-~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--------  258 (331)
                      +|     ++.+++ +...| +...|..+...+...|  ++++|.+.++++ +..|++..++..++.+|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            77     466665 34556 4778888888888877  689999999998 889999999999999999875        


Q ss_pred             -CchHHHHHHHHH-HhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHH
Q 043124          259 -RWAEVTKIRVAM-KELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQL  318 (331)
Q Consensus       259 -~~~~a~~~~~~m-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~  318 (331)
                       .+++|..+++++ .                           +.+|.....|..+...+..+
T Consensus       332 ~~~~~A~~~~~~l~~---------------------------~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          332 DILNKALELCEILAK---------------------------EKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHH---------------------------TTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---------------------------HhCchhHHHHHHHHHHHHHH
Confidence             258899999998 5                           34577777888777766544

>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=99.72  E-value=5.5e-15  Score=118.69  Aligned_cols=203  Identities=13%  Similarity=-0.044  Sum_probs=123.4

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGL  117 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~  117 (331)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|.+.|+++.+   .+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHH
Confidence            3455666666677777777777777776653 33555666666666677777777666665542   2445666666666


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLED  196 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  196 (331)
                      ...|++++|.+.++++.+.+..| +...+..+...+...|++++|...|+++.+..  +.+...+..+...+...|++++
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHH
Confidence            66666666666666666522223 34555556666666666666666666666321  2235556666666666666666


Q ss_pred             HHHHHHhC-CCC-CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          197 ALELIRSS-KFQ-PNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       197 a~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      |...+++. ... .+...+..+...+...|++++|.+.++++.+..|++...
T Consensus       194 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  245 (252)
T 2ho1_A          194 ARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEY  245 (252)
T ss_dssp             HHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHH
T ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHH
Confidence            66666652 222 234555555556666666666666666666666665544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=4e-16  Score=124.55  Aligned_cols=209  Identities=13%  Similarity=0.075  Sum_probs=123.7

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGL  117 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~  117 (331)
                      ...|..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|.+.|++..+   .+..++..+...+
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~  101 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVY  101 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            3445555666666666666666666666543 33455666666666666666666666665542   2455666667777


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+..  +.+...+..+...+...|++++|
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777776653 3455666667777777777777777777766332  33455666677777777777777


Q ss_pred             HHHHHhC-CCC-CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          198 LELIRSS-KFQ-PNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       198 ~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      .+.+++. ... .+..++..+..++...|++++|...++++++..|++...+..+...
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHH
Confidence            7777653 222 3456677777777777888888888888877777776665544433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.71  E-value=2.2e-16  Score=136.30  Aligned_cols=266  Identities=11%  Similarity=0.014  Sum_probs=208.8

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHccCCchHHHHHHHHHHHh----C-CCCchh
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQ----VTMATVLSACAHLGALDLGREIHLYVMQI----G-FDIDVY   77 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~   77 (331)
                      ..+..+...+...|++++|+..|+++.+.+. .+.    ..+..+...+...|++++|...++++++.    + .+....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            4455677888999999999999999998742 233    46888889999999999999999988764    1 123456


Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHhhcCCC---------ChhhHHHHHHHHHhCCC-----------------HHHHHHHHH
Q 043124           78 IGSALVDMYAKCGSLDRSLLVFFKLREK---------NLFCWNSIIEGLAVHGF-----------------AHEALAMFD  131 (331)
Q Consensus        78 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~-----------------~~~a~~~~~  131 (331)
                      ++..+..+|...|++++|...|++..+.         ...++..+...|...|+                 +++|++.++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            7888999999999999999999876532         23578889999999999                 999999998


Q ss_pred             HHHHc----CCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc----HhHHHHHHHHHHHcCCHHHHHHHHH
Q 043124          132 RMIYE----NVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE----VEHYGCMVDLLSKAGLLEDALELIR  202 (331)
Q Consensus       132 ~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~  202 (331)
                      +..+.    +..+ ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            87653    2112 2356778888999999999999999998732211111    2377888999999999999999987


Q ss_pred             hCC-----CC---CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC------CcchHHHHHHHHHhcCCchHHHHHHH
Q 043124          203 SSK-----FQ---PNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN------NSGYCTLLLNMYAEVSRWAEVTKIRV  268 (331)
Q Consensus       203 ~~~-----~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~~  268 (331)
                      +.-     ..   ....++..+...+...|++++|...+++++...+.      ....+..+..+|...|++++|...++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            531     11   12467788888899999999999999999885432      23477889999999999999999999


Q ss_pred             HHHhc
Q 043124          269 AMKEL  273 (331)
Q Consensus       269 ~m~~~  273 (331)
                      +..+.
T Consensus       368 ~al~~  372 (411)
T 4a1s_A          368 QHLQL  372 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98754

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=3.9e-16  Score=124.62  Aligned_cols=196  Identities=11%  Similarity=0.054  Sum_probs=155.3

Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA  151 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  151 (331)
                      ....+..+...+...|++++|...|++..+   .+..++..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            456777888899999999999999998764   356789999999999999999999999999874 4577888889999


Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHhhcCCHHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQ-PNAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      +...|++++|...++++.+..  +.+...+..+...+...|++++|...+++. ... .+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999998433  446778888999999999999999999874 233 3577888889999999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          230 HIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...++++++..|++...+..++.+|...|++++|...+++..+.
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            99999999999999999999999999999999999999999853

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.71  E-value=6.3e-15  Score=115.97  Aligned_cols=192  Identities=12%  Similarity=-0.031  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc
Q 043124           78 IGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH  154 (331)
Q Consensus        78 ~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  154 (331)
                      ++..+...+...|++++|.+.|++..+   .+..++..++..+...|++++|.+.++++.+.. +.+..++..+...+..
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            333344444444444444444433321   123344444444444455555555555444432 2234444445555555


Q ss_pred             c-CcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHH
Q 043124          155 A-GLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       155 ~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      . |++++|...++++.+ .+..| +...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|.
T Consensus        89 ~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  167 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDAD  167 (225)
T ss_dssp             TTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHH
Confidence            5 555555555555542 11112 2344444555555555555555555442 1122 2444555555555555566666


Q ss_pred             HHHHHHHhcCC-CCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          231 IAVNELMILEP-NNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       231 ~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..++++++..| .+...+..+...+...|+.+.|..+++.+.
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  209 (225)
T 2vq2_A          168 YYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQ  209 (225)
T ss_dssp             HHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            55555555555 555555555555555555555555555554

>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=99.71  E-value=4.6e-15  Score=119.13  Aligned_cols=197  Identities=11%  Similarity=-0.019  Sum_probs=172.7

Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      ...+..+...+...|++++|.+.|+++.+   .+..++..+...+...|++++|.+.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            56788889999999999999999998763   366789999999999999999999999999874 45778888899999


Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHH
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      ...|++++|..+++++.. .+..| +...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999984 32344 5678888999999999999999999874 2334 578888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          230 HIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      ...++++.+..|++...+..+...+...|++++|...++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999998653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.71  E-value=3e-16  Score=131.08  Aligned_cols=267  Identities=12%  Similarity=0.075  Sum_probs=207.8

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHccCCchHHHHHHHHHHHh----CCCC-ch
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPD----QVTMATVLSACAHLGALDLGREIHLYVMQI----GFDI-DV   76 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   76 (331)
                      ...+......+...|++++|...|+++.+... .+    ...+..+...+...|++++|...++++.+.    +..+ ..
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            44566677889999999999999999988742 23    357788889999999999999999887654    2122 35


Q ss_pred             hHHHHHHHHHHhhCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHhCCC--------------------HHHHH
Q 043124           77 YIGSALVDMYAKCGSLDRSLLVFFKLRE-----KN----LFCWNSIIEGLAVHGF--------------------AHEAL  127 (331)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~li~~~~~~~~--------------------~~~a~  127 (331)
                      .++..+..++...|++++|...+++..+     .+    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            6788899999999999999999987653     12    3478889999999999                    99999


Q ss_pred             HHHHHHHHc----CCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC----cHhHHHHHHHHHHHcCCHHHHH
Q 043124          128 AMFDRMIYE----NVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP----EVEHYGCMVDLLSKAGLLEDAL  198 (331)
Q Consensus       128 ~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~  198 (331)
                      +.+++..+.    +..+ ....+..+...+...|++++|...+++..+...-.+    ....+..+...+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            999887643    2112 245677788889999999999999998773211111    1347888889999999999999


Q ss_pred             HHHHhCC-C---CCc----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC------cchHHHHHHHHHhcCCchHHH
Q 043124          199 ELIRSSK-F---QPN----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN------SGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       199 ~~~~~~~-~---~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      ..+++.- .   .++    ..++..+...+...|++++|...+++++...|..      ...+..+..+|.+.|++++|.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  323 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAM  323 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            9987531 1   111    4567778888999999999999999998854332      346778999999999999999


Q ss_pred             HHHHHHHhc
Q 043124          265 KIRVAMKEL  273 (331)
Q Consensus       265 ~~~~~m~~~  273 (331)
                      ..+++..+.
T Consensus       324 ~~~~~a~~~  332 (338)
T 3ro2_A          324 HFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            999998764

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.71  E-value=6.6e-15  Score=115.85  Aligned_cols=207  Identities=14%  Similarity=-0.008  Sum_probs=111.0

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.           
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~-----------   74 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PD-----------   74 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT-----------
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CC-----------
Confidence            3445555555555555555555555554432 2234444455555555555555555555554442 22           


Q ss_pred             HHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCC-cHHHHHHHHHHHhccCcHHHHHH
Q 043124           86 YAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVH-GFAHEALAMFDRMIYENVEP-NGVTFISVLSACTHAGLVEEGRR  163 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~  163 (331)
                                          +..++..++..+... |++++|...++++.+.+..| +...+..+...+...|++++|..
T Consensus        75 --------------------~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  134 (225)
T 2vq2_A           75 --------------------SAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEA  134 (225)
T ss_dssp             --------------------CHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             --------------------ChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHH
Confidence                                333445555555555 55555555555555421122 24445555556666666666666


Q ss_pred             HHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC--CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Q 043124          164 RFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQ--PNAVIWGALLGGCKLHRNLEIAHIAVNELMILE  240 (331)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  240 (331)
                      .++++.+..  +.+...+..+...+...|++++|...+++. ...  .+...+..+...+...|+.+.|..+++.+....
T Consensus       135 ~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          135 YLKRSLAAQ--PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            666655221  223555666666666666666666666542 122  234455555555667777777777777776667


Q ss_pred             CCCcchH
Q 043124          241 PNNSGYC  247 (331)
Q Consensus       241 p~~~~~~  247 (331)
                      |++....
T Consensus       213 p~~~~~~  219 (225)
T 2vq2_A          213 PYSEELQ  219 (225)
T ss_dssp             TTCHHHH
T ss_pred             CCCHHHH
Confidence            7665553

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.68  E-value=4.6e-14  Score=124.02  Aligned_cols=269  Identities=13%  Similarity=0.046  Sum_probs=191.8

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHC--------CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhC-----
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNS--------GISPDQVTMATVLSACAHLGALDLGREIHLYVMQIG-----   71 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----   71 (331)
                      ....||.|...+...|++++|++.|++..+.        .-+....+|+.+..+|...|++++|...++++.+..     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4567999999999999999999999987642        112245689999999999999999999999887641     


Q ss_pred             -CC-CchhHHHHHHHHHHhh--CCHHHHHHHHhhcCC--C-ChhhHHHHHHH---HHhCCCHHHHHHHHHHHHHcCCCCc
Q 043124           72 -FD-IDVYIGSALVDMYAKC--GSLDRSLLVFFKLRE--K-NLFCWNSIIEG---LAVHGFAHEALAMFDRMIYENVEPN  141 (331)
Q Consensus        72 -~~-~~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~--~-~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~~~p~  141 (331)
                       .. ....++..+..++...  +++++|.+.|++..+  | ++..+..+..+   +...++.++|++.+++..+.+ +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence             11 1245666666666654  469999999998763  3 44555555544   445677888999999888764 445


Q ss_pred             HHHHHHHHHHHh----ccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHH
Q 043124          142 GVTFISVLSACT----HAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGA  215 (331)
Q Consensus       142 ~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~  215 (331)
                      ...+..+...+.    ..++.++|...+++.....  +.+...+..+...|...|++++|+..+++. ...|+ ..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA--PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC--ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHH
Confidence            555555554443    3467788999998887332  445677888899999999999999998864 34454 455555


Q ss_pred             HHHHHhh-------------------cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          216 LLGGCKL-------------------HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       216 l~~~~~~-------------------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      +..+|..                   .+..+.|...++++.+.+|.+...+..++.+|...|++++|...|++..+....
T Consensus       287 lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~  366 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELT  366 (472)
T ss_dssp             HHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCC
Confidence            5444322                   233567777888888888888888888888888888888888888888765443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.66  E-value=6.1e-13  Score=117.55  Aligned_cols=255  Identities=12%  Similarity=-0.081  Sum_probs=156.6

Q ss_pred             chhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc----cCCchHHHHHHHHHHHhCCCCch
Q 043124            5 DIISWTTMITCYSQ----NKQFREALDAFNEMKNSGISPDQVTMATVLSACAH----LGALDLGREIHLYVMQIGFDIDV   76 (331)
Q Consensus         5 ~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   76 (331)
                      |..++..|...|..    .+++++|+..|++..+.|   +...+..|...|..    .+++++|...|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            45566666666766    677777777777777654   45566667777766    677777777777777654   44


Q ss_pred             hHHHHHHHHHHh----hCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCcHHHHHH
Q 043124           77 YIGSALVDMYAK----CGSLDRSLLVFFKLREK-NLFCWNSIIEGLAV----HGFAHEALAMFDRMIYENVEPNGVTFIS  147 (331)
Q Consensus        77 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~  147 (331)
                      ..+..|...|..    .+++++|...|++..+. +..++..+...|..    .+++++|++.|++..+.|   +...+..
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~  188 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQ  188 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            556666777766    66777777777765543 45566666666665    567777777777766654   4455555


Q ss_pred             HHHHHhc----cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCcHHHHHHHHHH
Q 043124          148 VLSACTH----AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK----AGLLEDALELIRSSKFQPNAVIWGALLGG  219 (331)
Q Consensus       148 ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~~  219 (331)
                      +...|..    .++.++|..+|++.. ..+   +...+..+...|..    .+++++|...|++.--..+...+..+...
T Consensus       189 Lg~~y~~g~g~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  264 (490)
T 2xm6_A          189 LGYMYSRGLGVERNDAISAQWYRKSA-TSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYI  264 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCcCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555555    666777777776666 222   34455555555554    56666666666653222344445555555


Q ss_pred             Hhh----cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc-----CCchHHHHHHHHHHhcC
Q 043124          220 CKL----HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV-----SRWAEVTKIRVAMKELG  274 (331)
Q Consensus       220 ~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~m~~~~  274 (331)
                      +..    .++.++|..+++++.+.  .++..+..|...|...     +++++|...+++..+.|
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~  326 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQ--GNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG  326 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTT--TCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC
Confidence            554    56666666666666543  2334445555666555     56666666666655543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.65  E-value=3.1e-15  Score=121.61  Aligned_cols=218  Identities=10%  Similarity=-0.083  Sum_probs=176.8

Q ss_pred             HccCCchHHHHHHHHHHHhCC---CCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHH
Q 043124           52 AHLGALDLGREIHLYVMQIGF---DIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHE  125 (331)
Q Consensus        52 ~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  125 (331)
                      ...|++++|+..++++.+...   +.+..++..+..++...|++++|...|++..+   .+..+|..++..+...|++++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHH
Confidence            456889999999999988632   22567888999999999999999999998763   367899999999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 043124          126 ALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-  204 (331)
Q Consensus       126 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-  204 (331)
                      |.+.|+++.+.. +.+...+..+...+...|++++|...|+++.+.   .|+.......+..+...|++++|...+++. 
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999874 446788888999999999999999999999843   444444444555667789999999999653 


Q ss_pred             CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC----CcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          205 KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN----NSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       205 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...|+......++..+...++.++|...++++....|.    +...+..++.+|.+.|++++|...+++..+.
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          172 EKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            22233223334677788889999999999999886653    3677889999999999999999999999854

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.65  E-value=3.6e-14  Score=108.30  Aligned_cols=165  Identities=12%  Similarity=0.026  Sum_probs=127.0

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHH
Q 043124          106 NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMV  185 (331)
Q Consensus       106 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  185 (331)
                      +..+|..+...|...|++++|++.|++..+.+ |-+..++..+...+.+.|++++|...+.......  +.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD--TTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--chhHHHHHHHH
Confidence            45567778888888888888888888877764 4456777777788888888888888888877332  33456666677


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHH
Q 043124          186 DLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEV  263 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  263 (331)
                      ..+...++++.|...+.+. ...| +...+..+..++...|++++|.+.++++++.+|+++.++..++.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            7778888888888887753 2333 4667777778888888888888888888888888888888888888888999999


Q ss_pred             HHHHHHHHhc
Q 043124          264 TKIRVAMKEL  273 (331)
Q Consensus       264 ~~~~~~m~~~  273 (331)
                      ...|++..+.
T Consensus       161 ~~~~~~al~~  170 (184)
T 3vtx_A          161 VKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            8888888754

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.64  E-value=1.4e-12  Score=115.31  Aligned_cols=254  Identities=11%  Similarity=-0.066  Sum_probs=166.8

Q ss_pred             chhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc----cCCchHHHHHHHHHHHhCCCCch
Q 043124            5 DIISWTTMITCYSQ----NKQFREALDAFNEMKNSGISPDQVTMATVLSACAH----LGALDLGREIHLYVMQIGFDIDV   76 (331)
Q Consensus         5 ~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   76 (331)
                      +...+..|...|..    .+++++|...|++..+.|   +...+..|...|..    .+++++|...|++..+.|   +.
T Consensus        74 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  147 (490)
T 2xm6_A           74 YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RD  147 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            45566777777777    788888888888887764   55666667777766    678888888888877765   45


Q ss_pred             hHHHHHHHHHHh----hCCHHHHHHHHhhcCC-CChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCcHHHHHH
Q 043124           77 YIGSALVDMYAK----CGSLDRSLLVFFKLRE-KNLFCWNSIIEGLAV----HGFAHEALAMFDRMIYENVEPNGVTFIS  147 (331)
Q Consensus        77 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~  147 (331)
                      ..+..|..+|..    .++.++|.+.|++..+ .+..++..+...|..    .+++++|.+.|++..+.|   +...+..
T Consensus       148 ~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  224 (490)
T 2xm6_A          148 SGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLH  224 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            566677777776    6778888888876654 356677777777776    677888888887777654   3444555


Q ss_pred             HHHHHhc----cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCcHHHHHHHHHH
Q 043124          148 VLSACTH----AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSK----AGLLEDALELIRSSKFQPNAVIWGALLGG  219 (331)
Q Consensus       148 ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~~  219 (331)
                      +...+..    .++.++|..+|++.. ..+   +...+..+...|..    .+++++|++.|++..-.-+...+..+...
T Consensus       225 lg~~y~~g~g~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~  300 (490)
T 2xm6_A          225 LADMYYFGIGVTQDYTQSRVLFSQSA-EQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHL  300 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHH-TTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555554    667777777777766 222   34455555666666    67777777777654222344555555555


Q ss_pred             Hhhc-----CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC---CchHHHHHHHHHHhc
Q 043124          220 CKLH-----RNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS---RWAEVTKIRVAMKEL  273 (331)
Q Consensus       220 ~~~~-----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~  273 (331)
                      +...     +++++|..+++++.+.+  +...+..|...|...|   ++++|...+++..+.
T Consensus       301 y~~~~~g~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~  360 (490)
T 2xm6_A          301 YDKGAEGVAKNREQAISWYTKSAEQG--DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK  360 (490)
T ss_dssp             HHHCBTTBCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCCcCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC
Confidence            5555     67777777776666543  2334555666665544   566666666666554

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.64  E-value=1.6e-13  Score=113.75  Aligned_cols=236  Identities=10%  Similarity=0.018  Sum_probs=152.9

Q ss_pred             chhhHHHHHHHHHhC----CCh----hHHHHHHHHHHHCCCCCCHhhHHHHHHHHH-------ccCCc-------hHHHH
Q 043124            5 DIISWTTMITCYSQN----KQF----REALDAFNEMKNSGISPDQVTMATVLSACA-------HLGAL-------DLGRE   62 (331)
Q Consensus         5 ~~~~~~~li~~~~~~----~~~----~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~-------~~~~~-------~~a~~   62 (331)
                      +...|...+....+.    ++.    ++|..+|++..... +.+...|..++..+.       ..|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            345666676665543    233    57777888887753 446667776666654       34775       77888


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC--C-Chh-hHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Q 043124           63 IHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE--K-NLF-CWNSIIEGLAVHGFAHEALAMFDRMIYENV  138 (331)
Q Consensus        63 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  138 (331)
                      +|+++++.-.+.+...|..++..+.+.|++++|.++|++..+  | +.. +|..++..+.+.|++++|..+|++..+.+ 
T Consensus        86 ~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-  164 (308)
T 2ond_A           86 IYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-  164 (308)
T ss_dssp             HHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            888777731233455777777777788888888888877654  2 233 67777777777788888888887777653 


Q ss_pred             CCcHHHHHHHHHHH-hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC----CCC--cHH
Q 043124          139 EPNGVTFISVLSAC-THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK----FQP--NAV  211 (331)
Q Consensus       139 ~p~~~~~~~ll~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~p--~~~  211 (331)
                      +++...|....... ...|+.++|..+|++..+..  +.+...|..++..+.+.|++++|..+|++.-    +.|  ...
T Consensus       165 p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~  242 (308)
T 2ond_A          165 RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGE  242 (308)
T ss_dssp             TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            33344443332222 12577777777777776332  2346667777777777777777777777531    244  245


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      .|..++......|+.+.|..+++++.+..|++.
T Consensus       243 l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~~  275 (308)
T 2ond_A          243 IWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHccccc
Confidence            666667777777777777777777777777654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.62  E-value=1.6e-13  Score=120.62  Aligned_cols=265  Identities=9%  Similarity=-0.091  Sum_probs=179.0

Q ss_pred             hhHHHHHHHHHh--CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHH---HHccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 043124            7 ISWTTMITCYSQ--NKQFREALDAFNEMKNSGISPDQVTMATVLSA---CAHLGALDLGREIHLYVMQIGFDIDVYIGSA   81 (331)
Q Consensus         7 ~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   81 (331)
                      .+|+.+..++..  .+++++|+..|++..+.. +-++..+..+..+   +...++.++|++.++++++.. +.+..++..
T Consensus       137 ~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~  214 (472)
T 4g1t_A          137 ELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVL  214 (472)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHH
T ss_pred             HHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHH
Confidence            455555555554  457999999999998864 2345555555544   345688899999999999875 445666766


Q ss_pred             HHHHHHh----hCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc
Q 043124           82 LVDMYAK----CGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH  154 (331)
Q Consensus        82 l~~~~~~----~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  154 (331)
                      +...+..    .|++++|.+.+++...   .+..++..+...|...|++++|...+++..+.. |-+..++..+...|..
T Consensus       215 l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~  293 (472)
T 4g1t_A          215 LALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRA  293 (472)
T ss_dssp             HHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHH
Confidence            6655554    4677889999887643   466789999999999999999999999999874 4456666666655532


Q ss_pred             c-------------------CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHH--
Q 043124          155 A-------------------GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVI--  212 (331)
Q Consensus       155 ~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~--  212 (331)
                      .                   +..+.|...++...+..  +.+...+..+...|...|++++|++.|++. ...|+...  
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~  371 (472)
T 4g1t_A          294 KVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN--DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQ  371 (472)
T ss_dssp             HHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC--TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC--CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHH
Confidence            2                   34677888888877432  334567888999999999999999999863 33444322  


Q ss_pred             --HHHHHHH-HhhcCCHHHHHHHHHHHHhc------------------------CCCCcchHHHHHHHHHhcCCchHHHH
Q 043124          213 --WGALLGG-CKLHRNLEIAHIAVNELMIL------------------------EPNNSGYCTLLLNMYAEVSRWAEVTK  265 (331)
Q Consensus       213 --~~~l~~~-~~~~~~~~~a~~~~~~~~~~------------------------~p~~~~~~~~l~~~~~~~g~~~~a~~  265 (331)
                        +..+... ....|+.++|...+++++++                        +|+++.+|..|+.+|...|++++|.+
T Consensus       372 ~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~  451 (472)
T 4g1t_A          372 LLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADE  451 (472)
T ss_dssp             HHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence              2233222 45778999999988887653                        57778899999999999999999999


Q ss_pred             HHHHHHhcCCC
Q 043124          266 IRVAMKELGIE  276 (331)
Q Consensus       266 ~~~~m~~~~~~  276 (331)
                      .|++..+.|-.
T Consensus       452 ~y~kALe~~~~  462 (472)
T 4g1t_A          452 DSERGLESGSL  462 (472)
T ss_dssp             -----------
T ss_pred             HHHHHHhcCCC
Confidence            99999876543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.61  E-value=1.3e-14  Score=127.50  Aligned_cols=209  Identities=11%  Similarity=-0.010  Sum_probs=176.9

Q ss_pred             chHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH-HHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHH
Q 043124           57 LDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL-DRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDR  132 (331)
Q Consensus        57 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~  132 (331)
                      ++.+...++..... .+.+...+..+..++...|++ ++|++.|++..+   .+..+|..+..+|...|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555556554443 234678888999999999999 999999998764   3567999999999999999999999999


Q ss_pred             HHHcCCCCcHHHHHHHHHHHhcc---------CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc--------CCHH
Q 043124          133 MIYENVEPNGVTFISVLSACTHA---------GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA--------GLLE  195 (331)
Q Consensus       133 m~~~~~~p~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  195 (331)
                      ..+..  |+...+..+...+...         |++++|...|++..+..  +.+...|..+..+|...        |+++
T Consensus       163 al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          163 ALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            99864  6678888899999999         99999999999998432  34578889999999998        9999


Q ss_pred             HHHHHHHhC-CCCC----cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          196 DALELIRSS-KFQP----NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       196 ~a~~~~~~~-~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      +|++.|++. ...|    +...+..+..++...|++++|...++++++..|++...+..+..++...|++++|...+.++
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            999999874 3455    68889999999999999999999999999999999999999999999999999998755443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=4.8e-15  Score=122.65  Aligned_cols=165  Identities=10%  Similarity=0.038  Sum_probs=120.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHC-------CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh------C
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNS-------GISPDQVTMATVLSACAHLGALDLGREIHLYVMQI------G   71 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~   71 (331)
                      +..+|..+...+...|++++|..+|+++.+.       ..+....++..+...+...|++++|...++++.+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567888888999999999999999888763       22334566778888888899999999988888765      2


Q ss_pred             C-CCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc---
Q 043124           72 F-DIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-----------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE---  136 (331)
Q Consensus        72 ~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---  136 (331)
                      - +....++..+..+|...|++++|...|++..+.           ...++..+...+...|++++|.+.++++.+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 224567777888888888888888888766421           2345777777888888888888888877654   


Q ss_pred             ---CCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          137 ---NVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       137 ---~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                         +..| ...++..+...+...|++++|...++++.
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  222 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEIL  222 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence               1122 24456667777777888888888777776

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=3.2e-15  Score=123.73  Aligned_cols=234  Identities=11%  Similarity=0.022  Sum_probs=170.3

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHh-------CCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-------
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQI-------GFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-------  105 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------  105 (331)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+..+|...|++++|...|++..+.       
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567888899999999999999999998874       23445678888999999999999999999876531       


Q ss_pred             ----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc------CCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC--
Q 043124          106 ----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE------NVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGY--  172 (331)
Q Consensus       106 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--  172 (331)
                          ...++..+...+...|++++|...++++.+.      +..| ....+..+...+...|++++|..+++++.+..  
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence                2457889999999999999999999998865      2223 35667788899999999999999999987421  


Q ss_pred             ---C-CCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC----------CCCcH-------HHHHHHHHHHhhcCCHHHHHH
Q 043124          173 ---S-ITPEVEHYGCMVDLLSKAGLLEDALELIRSSK----------FQPNA-------VIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       173 ---~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~p~~-------~~~~~l~~~~~~~~~~~~a~~  231 (331)
                         + .+.....+..+...|...|++++|.+.+++.-          ..+..       ..+..+...+...+.+.++..
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               1 12235678888999999999999999987531          11211       122222233445566666777


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          232 AVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       232 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .++......|.....+..++.+|.+.|++++|..++++..+.
T Consensus       266 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          266 WYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            777777778888888999999999999999999999988753

>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=99.58  E-value=1.6e-12  Score=122.85  Aligned_cols=235  Identities=13%  Similarity=0.072  Sum_probs=192.3

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +..+|..+..++...|++++|++.|.+.      -|...|..++.++.+.|++++|.+.+....+..  ++..+.+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            4567889999999999999999999663      477888899999999999999999998877764  34444556899


Q ss_pred             HHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      +|++.+++++...+.   ..++...|..+...|...|++++|...|...         ..|..+...+.+.|+++.|.+.
T Consensus      1176 aYAKl~rleele~fI---~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEa 1243 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDG 1243 (1630)
T ss_pred             HHHhhcCHHHHHHHH---hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHH
Confidence            999999988655443   4556777888999999999999999999985         3788899999999999999999


Q ss_pred             HHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          165 FLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      +++..       +..+|..+..+|...|++..|..+...+.  .+...+..++..|.+.|.+++|+++++..+.++|.+.
T Consensus      1244 arKA~-------n~~aWkev~~acve~~Ef~LA~~cgl~Ii--v~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~ 1314 (1630)
T 1xi4_A         1244 ARKAN-------STRTWKEVCFACVDGKEFRLAQMCGLHIV--VHADELEELINYYQDRGYFEELITMLEAALGLERAHM 1314 (1630)
T ss_pred             HHHhC-------CHHHHHHHHHHHhhhhHHHHHHHHHHhhh--cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHh
Confidence            98875       45789988999999999999998877543  4555666889999999999999999999999999999


Q ss_pred             chHHHHHHHHHhcC--CchHHHHHHH
Q 043124          245 GYCTLLLNMYAEVS--RWAEVTKIRV  268 (331)
Q Consensus       245 ~~~~~l~~~~~~~g--~~~~a~~~~~  268 (331)
                      .+|..|..+|++..  +..++.++|.
T Consensus      1315 gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1315 GMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            99988888887753  3334444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.57  E-value=4.6e-13  Score=102.10  Aligned_cols=162  Identities=10%  Similarity=0.019  Sum_probs=112.5

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|..+...|.+.|++++|+..|++..+.. +-+..++..+..++...|+++.|...+..+.... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            45567777777777777777777777777664 3356677777777777777777777777777664 335556666667


Q ss_pred             HHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      .+...++++.|.+.+.+..+   .+..++..+...+.+.|++++|++.|++..+.+ |.+..++..+..++.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            77777777777777765542   345567777777777777777777777777653 44566666677777777777777


Q ss_pred             HHHHHhhh
Q 043124          162 RRRFLSMT  169 (331)
Q Consensus       162 ~~~~~~~~  169 (331)
                      ...|++..
T Consensus       161 ~~~~~~al  168 (184)
T 3vtx_A          161 VKYFKKAL  168 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777766

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.57  E-value=7.7e-12  Score=106.41  Aligned_cols=264  Identities=13%  Similarity=-0.015  Sum_probs=192.2

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHh----hHHHHHHHHHccCCchHHHHHHHHHHHhCC--C-C--chhHHH
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGISPDQV----TMATVLSACAHLGALDLGREIHLYVMQIGF--D-I--DVYIGS   80 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~-~--~~~~~~   80 (331)
                      ......+...|++++|...+++........+..    ++..+...+...|+++.|...+++..+...  . +  ...++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            344556778999999999999988764222222    456677788889999999999998876421  1 1  123466


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCC----------C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC----CcHHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLRE----------K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVE----PNGVTF  145 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----p~~~~~  145 (331)
                      .+...+...|++++|...+++..+          + ...++..+...+...|++++|...+++..+....    ....++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            788889999999999999887653          1 1235677888999999999999999998765321    124567


Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHH-----HHHHHHHHcCCHHHHHHHHHhCC-CCCc-----HHHHH
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYG-----CMVDLLSKAGLLEDALELIRSSK-FQPN-----AVIWG  214 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~-~~p~-----~~~~~  214 (331)
                      ..+...+...|++++|...+++......-......+.     ..+..+...|++++|...+++.. ..|.     ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7788889999999999999998763211111111121     23344779999999999999753 2221     23456


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHHhcCCC------CcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          215 ALLGGCKLHRNLEIAHIAVNELMILEPN------NSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       215 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .+...+...|++++|...++++....+.      ....+..+..++...|++++|...+++..+.
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            7777899999999999999999874321      1235667788999999999999999988654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.56  E-value=2.1e-13  Score=119.87  Aligned_cols=198  Identities=12%  Similarity=0.001  Sum_probs=168.5

Q ss_pred             HHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCH-HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHh
Q 043124           92 LDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFA-HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLS  167 (331)
Q Consensus        92 ~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  167 (331)
                      ++++...+++...   .+...+..+...+...|++ ++|++.|++..+.. +.+...+..+...+...|++++|...|++
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5566666665543   3667899999999999999 99999999999875 45688899999999999999999999999


Q ss_pred             hhhcCCCCCcHhHHHHHHHHHHHc---------CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhc--------CCHHH
Q 043124          168 MTCGYSITPEVEHYGCMVDLLSKA---------GLLEDALELIRSS-KFQP-NAVIWGALLGGCKLH--------RNLEI  228 (331)
Q Consensus       168 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~--------~~~~~  228 (331)
                      ..+   +.|+...+..+...|...         |++++|++.+++. ...| +...|..+..++...        |++++
T Consensus       163 al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            993   357778899999999999         9999999999874 3445 578888898899888        99999


Q ss_pred             HHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCch
Q 043124          229 AHIAVNELMILEP---NNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASD  305 (331)
Q Consensus       229 a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~  305 (331)
                      |...++++++..|   ++...|..++.+|...|++++|...|++..+.                           +|+++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---------------------------~p~~~  292 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL---------------------------DPAWP  292 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------------CTTCH
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------------------------CCCCH
Confidence            9999999999999   89999999999999999999999999998753                           46667


Q ss_pred             HHHHHHHHHHHHHHh
Q 043124          306 EIYSSLSKLDEQLKL  320 (331)
Q Consensus       306 ~~~~~l~~l~~~~~~  320 (331)
                      .++..++.++..+++
T Consensus       293 ~a~~~l~~~~~~lg~  307 (474)
T 4abn_A          293 EPQQREQQLLEFLSR  307 (474)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            777777777766554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.56  E-value=4.6e-12  Score=113.06  Aligned_cols=147  Identities=8%  Similarity=0.024  Sum_probs=94.5

Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc--HhHHHHHHHHHHHcCCHHHHHHHHH
Q 043124          125 EALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE--VEHYGCMVDLLSKAGLLEDALELIR  202 (331)
Q Consensus       125 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~  202 (331)
                      +|..+|++..+.-.+-+...+..++..+.+.|++++|..+|+++.+   +.|+  ...|..++..+.+.|++++|.++|+
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC---ccccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            6666666665421233455666666666667777777777777662   2333  2366666666667777777777776


Q ss_pred             hC-CCCCc-HHHHHHHHHH-HhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          203 SS-KFQPN-AVIWGALLGG-CKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       203 ~~-~~~p~-~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      +. ...|+ ...+...... +...|+.++|..+|+++++..|+++.++..++..+.+.|+.++|..+|++....+
T Consensus       381 ~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          381 KAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            53 22232 2222222212 2357888888888888888888888888888888888888888888888887653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.56  E-value=6.1e-13  Score=113.74  Aligned_cols=227  Identities=7%  Similarity=-0.011  Sum_probs=126.7

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHC----CCCC-CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC------CchhHHH
Q 043124           12 MITCYSQNKQFREALDAFNEMKNS----GISP-DQVTMATVLSACAHLGALDLGREIHLYVMQIGFD------IDVYIGS   80 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~   80 (331)
                      ....+...|++++|+..|++..+.    +-.+ ...++..+..++...|+++.|...++++.+....      ....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            344566677777777777777653    1111 2345666777777777777777777776653111      1134566


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCCC-----C----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CC-CCcHHHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLREK-----N----LFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NV-EPNGVTFI  146 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~~~  146 (331)
                      .+..+|...|++++|.+.|++..+.     +    ..++..+...|...|++++|.+.|++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            6666777777777777666655421     1    135666666666667777776666666552    22 22345555


Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcC---CCCCcHhHHHHHHHHHHHcCC---HHHHHHHHHhCCCCCc-HHHHHHHHHH
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGY---SITPEVEHYGCMVDLLSKAGL---LEDALELIRSSKFQPN-AVIWGALLGG  219 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~p~-~~~~~~l~~~  219 (331)
                      .+...+...|++++|...+++..+..   +-+.....+..+...+...|+   +++|+.++++.+..|+ ...+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            66666666666666666666654211   001112223445555555555   5556666655543332 2334444555


Q ss_pred             HhhcCCHHHHHHHHHHHHh
Q 043124          220 CKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~  238 (331)
                      |...|++++|...++++++
T Consensus       349 y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            5566666666666665554

>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=99.55  E-value=3.9e-12  Score=120.24  Aligned_cols=230  Identities=13%  Similarity=0.132  Sum_probs=156.5

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhh
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKC   89 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (331)
                      ..+...+...|.+++|..+|++..     -.....+.++.   ..+++++|.++.++.      .+..+|..+..++.+.
T Consensus      1053 ~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~ 1118 (1630)
T 1xi4_A         1053 PDIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQK 1118 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhC
Confidence            335667778888999988888852     12222233332   567788888877643      2467788888888888


Q ss_pred             CCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124           90 GSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus        90 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      |++++|.+.|.+.  .|...|..++.++.+.|++++|.+.|....+..  +++...+.++.+|++.+++++...+.   .
T Consensus      1119 G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~ 1191 (1630)
T 1xi4_A         1119 GMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---N 1191 (1630)
T ss_pred             CCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---h
Confidence            8888888888664  677778888888888888888888888776654  22222234666777777766433332   1


Q ss_pred             hcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCC--------
Q 043124          170 CGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEP--------  241 (331)
Q Consensus       170 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p--------  241 (331)
                           .++...|..+...|...|++++|..+|...      ..|..+..++.+.|+++.|.+.++++....+        
T Consensus      1192 -----~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~ac 1260 (1630)
T 1xi4_A         1192 -----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFAC 1260 (1630)
T ss_pred             -----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHH
Confidence                 234445555667777777777777777764      2666677777777777777777666643222        


Q ss_pred             -----------------CCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          242 -----------------NNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       242 -----------------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                                       .++..+..++..|.+.|.+++|+.+++...
T Consensus      1261 ve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1261 VDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             hhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence                             234456778889999999999999997765

>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=99.55  E-value=2.5e-13  Score=124.31  Aligned_cols=163  Identities=14%  Similarity=0.107  Sum_probs=131.3

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          107 LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       107 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      ..+|+.+...+.+.|++++|++.|++.++.. +-+..++..+..++.+.|++++|+..|++..+..  +-+...|..+..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            4567788888888888888888888887763 3456777778888888888888888888877332  224677888888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHH
Q 043124          187 LLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      +|...|++++|++.|++. .+.| +...+..+..++...|++++|+..++++++++|++...+..++.+|...|++++|.
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            888888888888888763 3455 47788888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHh
Q 043124          265 KIRVAMKE  272 (331)
Q Consensus       265 ~~~~~m~~  272 (331)
                      +.+++..+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=4e-12  Score=105.32  Aligned_cols=213  Identities=9%  Similarity=0.001  Sum_probs=171.5

Q ss_pred             hHHHHHHHHHHHhCCCCchhHHHHHHHHHHh-------hCCH-------HHHHHHHhhcCC---C-ChhhHHHHHHHHHh
Q 043124           58 DLGREIHLYVMQIGFDIDVYIGSALVDMYAK-------CGSL-------DRSLLVFFKLRE---K-NLFCWNSIIEGLAV  119 (331)
Q Consensus        58 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~-------~~a~~~~~~~~~---~-~~~~~~~li~~~~~  119 (331)
                      ++|..+|+++++.. +.+..+|..++..+..       .|++       ++|..+|++..+   | +...|..++..+.+
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            68889999998874 5578888888888764       5886       899999997754   3 45689999999999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCc-HH-HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHH-HcCCHHH
Q 043124          120 HGFAHEALAMFDRMIYENVEPN-GV-TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLS-KAGLLED  196 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~-~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~  196 (331)
                      .|++++|.++|+++.+.  .|+ .. .|..++..+.+.|++++|..+|++..+..  +.+...|........ ..|++++
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  443 33 78888999999999999999999998322  334455554433322 3799999


Q ss_pred             HHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc---CCC-CcchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          197 ALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMIL---EPN-NSGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       197 a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      |..+|++. ...| +...|..++..+...|++++|..+|++++..   .|+ ....|..++..+.+.|+.+.|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999874 2334 5788888888999999999999999999995   453 5678888999999999999999999999


Q ss_pred             HhcCC
Q 043124          271 KELGI  275 (331)
Q Consensus       271 ~~~~~  275 (331)
                      .+...
T Consensus       268 ~~~~p  272 (308)
T 2ond_A          268 FTAFR  272 (308)
T ss_dssp             HHHTT
T ss_pred             HHHcc
Confidence            87643

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.55  E-value=2.6e-13  Score=116.50  Aligned_cols=236  Identities=12%  Similarity=0.050  Sum_probs=184.9

Q ss_pred             CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---------
Q 043124           38 SPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID---VYIGSALVDMYAKCGSLDRSLLVFFKLREK---------  105 (331)
Q Consensus        38 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------  105 (331)
                      .+....+......+...|++++|...++++.+......   ..++..+..++...|++++|...|++..+.         
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            44556677788889999999999999999998853211   357888999999999999999998876421         


Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC----CC-CcHHHHHHHHHHHhccCc--------------------HHH
Q 043124          106 NLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN----VE-PNGVTFISVLSACTHAGL--------------------VEE  160 (331)
Q Consensus       106 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~-p~~~~~~~ll~~~~~~~~--------------------~~~  160 (331)
                      ...++..+...+...|++++|...+++..+..    .+ ....++..+...+...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            24578889999999999999999999887641    11 114477788888999999                    999


Q ss_pred             HHHHHHhhhhc---CCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC----CCCc----HHHHHHHHHHHhhcCCHHH
Q 043124          161 GRRRFLSMTCG---YSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK----FQPN----AVIWGALLGGCKLHRNLEI  228 (331)
Q Consensus       161 a~~~~~~~~~~---~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~p~----~~~~~~l~~~~~~~~~~~~  228 (331)
                      |...+++....   .+..+ ....+..+...|...|++++|...+++.-    ..++    ..++..+...+...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            99999886531   11112 24578888899999999999999987531    1122    3467888888999999999


Q ss_pred             HHHHHHHHHhcCCCC------cchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          229 AHIAVNELMILEPNN------SGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       229 a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      |...+++++...|..      ...+..++..|...|++++|...+++..+.
T Consensus       246 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          246 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            999999999855443      556788999999999999999999998754

>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=99.54  E-value=4.3e-13  Score=106.03  Aligned_cols=205  Identities=11%  Similarity=-0.078  Sum_probs=140.6

Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCC----CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLRE----KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLS  150 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  150 (331)
                      +...+......+...|++++|.+.|++..+    ++...+..+..++...|++++|+..|++..+.+ +.+...+..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            456777778888888888888888876653    456666668888888888888888888887764 345667777778


Q ss_pred             HHhccCcHHHHHHHHHhhhhcCCCCCcH-------hHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc---HHHHHHHHHH
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGYSITPEV-------EHYGCMVDLLSKAGLLEDALELIRS-SKFQPN---AVIWGALLGG  219 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~---~~~~~~l~~~  219 (331)
                      .+...|++++|...|++..+..  +.+.       ..|..+...+...|++++|++.+++ +...|+   ...+..+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            8888888888888888877432  2223       4466677777788888888888876 345565   3455555555


Q ss_pred             HhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCC
Q 043124          220 CKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDK  299 (331)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (331)
                      +..     .+...++++....+.+...|..+.  ....+.+++|...+++..+                           
T Consensus       163 ~~~-----~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~---------------------------  208 (228)
T 4i17_A          163 FYN-----NGADVLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVT---------------------------  208 (228)
T ss_dssp             HHH-----HHHHHHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH---------------------------
T ss_pred             HHH-----HHHHHHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh---------------------------
Confidence            543     334556666666655544443332  3445667999999998874                           


Q ss_pred             CCCCchHHHHHHHHHHH
Q 043124          300 SHPASDEIYSSLSKLDE  316 (331)
Q Consensus       300 ~~p~~~~~~~~l~~l~~  316 (331)
                      ..|+++.+...+.++..
T Consensus       209 l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          209 LSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HCTTCHHHHHHHHHHHT
T ss_pred             cCCCCHHHHHHHHHHHH
Confidence            35777788877777654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.54  E-value=1.4e-13  Score=118.58  Aligned_cols=231  Identities=13%  Similarity=0.060  Sum_probs=182.2

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhhCCHHHHHHHHhhcCCC---------Chh
Q 043124           42 VTMATVLSACAHLGALDLGREIHLYVMQIGFDIDV----YIGSALVDMYAKCGSLDRSLLVFFKLREK---------NLF  108 (331)
Q Consensus        42 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~  108 (331)
                      ..+..+...+...|++++|+..++++++.... +.    .++..+..+|...|++++|...|++..+.         ...
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34556677888999999999999999998532 32    57888999999999999999998876531         345


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHc----C-CCCcHHHHHHHHHHHhccCc-----------------HHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYE----N-VEPNGVTFISVLSACTHAGL-----------------VEEGRRRFL  166 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~p~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~  166 (331)
                      ++..+...|...|++++|...+++..+.    + .+....++..+...+...|+                 +++|...++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            7889999999999999999999998764    1 12234577788889999999                 999999998


Q ss_pred             hhhhc---CCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CC---Cc----HHHHHHHHHHHhhcCCHHHHHHHHH
Q 043124          167 SMTCG---YSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK-FQ---PN----AVIWGALLGGCKLHRNLEIAHIAVN  234 (331)
Q Consensus       167 ~~~~~---~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~---p~----~~~~~~l~~~~~~~~~~~~a~~~~~  234 (331)
                      +..+.   .+-.+ ....+..+...|...|++++|...+++.- ..   ++    ...+..+...+...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            86531   11111 24578888899999999999999988631 11   11    2367788888999999999999999


Q ss_pred             HHHhcCCCC------cchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          235 ELMILEPNN------SGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       235 ~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +++...|..      ...+..++.+|...|++++|...+++..+.
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999855532      456788999999999999999999998754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.54  E-value=3.3e-13  Score=115.40  Aligned_cols=226  Identities=10%  Similarity=-0.031  Sum_probs=174.5

Q ss_pred             HHHHHHccCCchHHHHHHHHHHHh----CCCC-chhHHHHHHHHHHhhCCHHHHHHHHhhcCC-----C-----ChhhHH
Q 043124           47 VLSACAHLGALDLGREIHLYVMQI----GFDI-DVYIGSALVDMYAKCGSLDRSLLVFFKLRE-----K-----NLFCWN  111 (331)
Q Consensus        47 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~-----~~~~~~  111 (331)
                      ....+...|++++|...++++.+.    +-++ ...++..+..+|...|++++|...+++..+     +     ...+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            566778899999999999998874    2112 346788899999999999999998877653     1     135789


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcC----CCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhc---CCC-CCcHhHHH
Q 043124          112 SIIEGLAVHGFAHEALAMFDRMIYEN----VEP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCG---YSI-TPEVEHYG  182 (331)
Q Consensus       112 ~li~~~~~~~~~~~a~~~~~~m~~~~----~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~  182 (331)
                      .+...|...|++++|+..|++..+..    -++ ...++..+...|...|++++|...+++..+-   .+. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            99999999999999999999987541    111 1247778899999999999999999998741   122 33467788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCC------CCCc-HHHHHHHHHHHhhcCC---HHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          183 CMVDLLSKAGLLEDALELIRSSK------FQPN-AVIWGALLGGCKLHRN---LEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~~------~~p~-~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      .+...|.+.|++++|...+++.-      -.|. ...+..+...+...|+   +++|..++++. ...|.....+..++.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            89999999999999999987631      1222 2335666667888888   77888887776 333455667788999


Q ss_pred             HHHhcCCchHHHHHHHHHHhc
Q 043124          253 MYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       253 ~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .|...|++++|...+++..+.
T Consensus       348 ~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999998764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.53  E-value=1.6e-13  Score=114.48  Aligned_cols=232  Identities=13%  Similarity=0.061  Sum_probs=180.1

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---------Chhh
Q 043124           42 VTMATVLSACAHLGALDLGREIHLYVMQIGFDID---VYIGSALVDMYAKCGSLDRSLLVFFKLREK---------NLFC  109 (331)
Q Consensus        42 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~  109 (331)
                      ..+......+...|++++|...++++.+......   ..++..+...+...|++++|.+.+++..+.         ...+
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            3455667788899999999999999999753211   367888999999999999999999876531         2457


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCc----HHHHHHHHHHHhccCc--------------------HHHHHHH
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENV-EPN----GVTFISVLSACTHAGL--------------------VEEGRRR  164 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~~~~~~~~--------------------~~~a~~~  164 (331)
                      +..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            88899999999999999999999875411 112    3467778888999999                    9999999


Q ss_pred             HHhhhhc---CCC-CCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-C---CCc----HHHHHHHHHHHhhcCCHHHHHHH
Q 043124          165 FLSMTCG---YSI-TPEVEHYGCMVDLLSKAGLLEDALELIRSSK-F---QPN----AVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       165 ~~~~~~~---~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~---~p~----~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      +++....   .+. ......+..+...+...|++++|.+.+++.- .   .++    ..++..+...+...|++++|...
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  245 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  245 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9886521   111 1124577888889999999999999987631 1   111    33677888889999999999999


Q ss_pred             HHHHHhcCCCC------cchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          233 VNELMILEPNN------SGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       233 ~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +++++...|..      ...+..++.+|...|++++|...+++..+.
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          246 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            99998855433      456778999999999999999999998754

>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=99.52  E-value=1.2e-12  Score=99.42  Aligned_cols=161  Identities=9%  Similarity=-0.009  Sum_probs=90.4

Q ss_pred             hHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHh
Q 043124           77 YIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACT  153 (331)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  153 (331)
                      ..+..+...+...|++++|.+.|+++.+.   +..++..++..+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            44555666666777777777777666542   34556666666666666666666666666542 334555555555566


Q ss_pred             ccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHH
Q 043124          154 HAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAV  233 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  233 (331)
                      ..|++++|...++++.+..  +.+.                                ..+..+...+...|++++|...+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~--~~~~--------------------------------~~~~~~a~~~~~~~~~~~A~~~~  133 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN--PINF--------------------------------NVRFRLGVALDNLGRFDEAIDSF  133 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC--TTCH--------------------------------HHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC--cHhH--------------------------------HHHHHHHHHHHHcCcHHHHHHHH
Confidence            6666666666666555221  2233                                34444444455555555555555


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          234 NELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       234 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +++.+..|.+...+..++.++...|++++|...+++..+
T Consensus       134 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          134 KIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555555555555555555555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.50  E-value=4.5e-11  Score=106.68  Aligned_cols=211  Identities=9%  Similarity=-0.013  Sum_probs=165.5

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHh-------hCCHH-------HHHHHHhhcCC---C-ChhhHHHHHHHHHhC
Q 043124           59 LGREIHLYVMQIGFDIDVYIGSALVDMYAK-------CGSLD-------RSLLVFFKLRE---K-NLFCWNSIIEGLAVH  120 (331)
Q Consensus        59 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~a~~~~~~~~~---~-~~~~~~~li~~~~~~  120 (331)
                      .+..+|++++... +.+..+|..++..+.+       .|+++       +|..+|++..+   | +...|..++..+.+.
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            4556677666653 4467778888888775       69987       89999998764   3 567899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCc-H-HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH-HHHcCCHHHH
Q 043124          121 GFAHEALAMFDRMIYENVEPN-G-VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL-LSKAGLLEDA  197 (331)
Q Consensus       121 ~~~~~a~~~~~~m~~~~~~p~-~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  197 (331)
                      |++++|..+|+++.+.  +|+ . ..|...+..+.+.|+.++|..+|++..+..  +.+...|...+.. +...|+.++|
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            9999999999999986  443 3 578888888889999999999999998432  2223333332222 3468999999


Q ss_pred             HHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc----hHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          198 LELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG----YCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       198 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..+|++. ...| +...|..++..+.+.|+.++|..+|++++...|.++.    .|...+......|+.+.+..+.+++.
T Consensus       411 ~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          411 FKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999863 3345 5788889999999999999999999999997766554    77777888888999999999999987


Q ss_pred             hcC
Q 043124          272 ELG  274 (331)
Q Consensus       272 ~~~  274 (331)
                      +.-
T Consensus       491 ~~~  493 (530)
T 2ooe_A          491 TAF  493 (530)
T ss_dssp             HHT
T ss_pred             HHC
Confidence            653

>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=4.1e-12  Score=100.33  Aligned_cols=205  Identities=12%  Similarity=0.038  Sum_probs=159.8

Q ss_pred             CCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHH
Q 043124           38 SPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSII  114 (331)
Q Consensus        38 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li  114 (331)
                      +.|+..+......+...|++++|+..|+++++...+++...+..+..++...|++++|.+.|++..+.   +..+|..+.
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   83 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKS   83 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            34678888999999999999999999999999865467778888999999999999999999987643   456899999


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCcH-------HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc---HhHHHHH
Q 043124          115 EGLAVHGFAHEALAMFDRMIYENVEPNG-------VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE---VEHYGCM  184 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l  184 (331)
                      .++...|++++|+..|++..+.. +.+.       ..|..+...+...|++++|+..|++..+   +.|+   ...+..+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l  159 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHH
Confidence            99999999999999999999874 3345       4577788888999999999999999983   2454   5677777


Q ss_pred             HHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          185 VDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       185 ~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      ..+|...|+.     .++++.  ...+...+....  ....+.+++|...++++++..|++......+...
T Consensus       160 ~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i  223 (228)
T 4i17_A          160 GVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQV  223 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Confidence            7777665543     233211  122344444433  3345679999999999999999988776655443

>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=99.50  E-value=6e-12  Score=95.50  Aligned_cols=159  Identities=16%  Similarity=0.035  Sum_probs=127.8

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGL  117 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~  117 (331)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|.+.+++..+   .+..++..++..+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3567778888999999999999999887764 44678889999999999999999999998753   3667899999999


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHH
Q 043124          118 AVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDA  197 (331)
Q Consensus       118 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  197 (331)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+..  +.+...+..+...+...|++++|
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998874 5577888888899999999999999999988432  23345555555666666666666


Q ss_pred             HHHHHh
Q 043124          198 LELIRS  203 (331)
Q Consensus       198 ~~~~~~  203 (331)
                      .+.+++
T Consensus       164 ~~~~~~  169 (186)
T 3as5_A          164 LPHFKK  169 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.46  E-value=9.2e-12  Score=106.21  Aligned_cols=226  Identities=12%  Similarity=0.027  Sum_probs=126.5

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCC-CCC----HhhHHHHHHHHHccCCchHHHHHHHHHHHhCC-----CC-chhHHHH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGI-SPD----QVTMATVLSACAHLGALDLGREIHLYVMQIGF-----DI-DVYIGSA   81 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~~~   81 (331)
                      ...+...|++++|+..|++..+... .++    ..++..+..++...|+++.|...++++.+...     .+ ...+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            3445567777777777777664311 112    23566666677777777777777776655311     11 1345566


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCCcHHHHHHH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLRE-----KN----LFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NVEPNGVTFISV  148 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~~~l  148 (331)
                      +..+|...|++++|.+.|++..+     .+    ..+++.+..+|...|++++|.+.|++..+.    +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            66677777777777766665442     11    235666666666667777777666666551    122234555566


Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCC---CCcHhHHHHHHHHHHHcCC---HHHHHHHHHhCCCCCc-HHHHHHHHHHHh
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSI---TPEVEHYGCMVDLLSKAGL---LEDALELIRSSKFQPN-AVIWGALLGGCK  221 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~p~-~~~~~~l~~~~~  221 (331)
                      ...+.+.|++++|...+++..+...-   +.....+..+...+...++   +.+|+..+++.+..|+ ...+..+...|.
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH
Confidence            66666666666666666665532111   1112334444444555555   6666666665543333 223444555566


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 043124          222 LHRNLEIAHIAVNELMI  238 (331)
Q Consensus       222 ~~~~~~~a~~~~~~~~~  238 (331)
                      ..|++++|...++++++
T Consensus       348 ~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            66666666666666554

>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=99.45  E-value=3.3e-12  Score=116.99  Aligned_cols=162  Identities=9%  Similarity=-0.009  Sum_probs=144.7

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +..+|+.|...+.+.|++++|+..|++..+.. +-+..+|..+..++.+.|++++|+..|+++++.. +.+..+|..+..
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 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56789999999999999999999999999874 3367889999999999999999999999999985 446889999999


Q ss_pred             HHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      +|.+.|++++|++.|++..+   .+..+|+.+..+|...|++++|++.|++.++.. +-+...+..+...+...|++++|
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHH
Confidence            99999999999999998764   366799999999999999999999999999874 44678888999999999999999


Q ss_pred             HHHHHhhh
Q 043124          162 RRRFLSMT  169 (331)
Q Consensus       162 ~~~~~~~~  169 (331)
                      .+.++++.
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98888766

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.45  E-value=4e-11  Score=104.69  Aligned_cols=254  Identities=10%  Similarity=-0.002  Sum_probs=152.4

Q ss_pred             hhhHHHHHHHHHhCC-----ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCc---hHHHHHHHHHHHhCCCCchh
Q 043124            6 IISWTTMITCYSQNK-----QFREALDAFNEMKNSGISPDQVTMATVLSACAHLGAL---DLGREIHLYVMQIGFDIDVY   77 (331)
Q Consensus         6 ~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~   77 (331)
                      ...+..|...+...+     ++++|+..|++..+.|..   ..+..|...|...+..   ..+.+.+......|   +..
T Consensus        69 ~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~  142 (452)
T 3e4b_A           69 PRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPE  142 (452)
T ss_dssp             --CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTT
T ss_pred             HHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHH
Confidence            334455555444444     566777777777665422   2444555555443332   22333333333333   234


Q ss_pred             HHHHHHHHHHhhC----CHHHHHHHHhhcCCCChhhHHHHHHHHHhCC---CHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 043124           78 IGSALVDMYAKCG----SLDRSLLVFFKLREKNLFCWNSIIEGLAVHG---FAHEALAMFDRMIYENVEPNGVTFISVLS  150 (331)
Q Consensus        78 ~~~~l~~~~~~~g----~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  150 (331)
                      .+..|...|...+    +.+++..+++.....++.++..+...|...|   +.++|++.|++..+.| +++...+..+..
T Consensus       143 a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~  221 (452)
T 3e4b_A          143 AGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVAR  221 (452)
T ss_dssp             HHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHH
Confidence            4555566666655    3444555566666666667788888888888   7888888888887776 445554444555


Q ss_pred             HHhcc----CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH-H--HHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhc
Q 043124          151 ACTHA----GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL-L--SKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLH  223 (331)
Q Consensus       151 ~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~  223 (331)
                      .|...    ++.++|..+|++..     +-+...+..|... +  ...+++++|++.|++.--.-+...+..|...|. .
T Consensus       222 ~y~~g~~~~~d~~~A~~~~~~aa-----~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~-~  295 (452)
T 3e4b_A          222 VLGDATLGTPDEKTAQALLEKIA-----PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY-E  295 (452)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHG-----GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-H
T ss_pred             HHhCCCCCCCCHHHHHHHHHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-c
Confidence            55544    67788888887765     2234455555555 3  457778888877776422235556666666655 4


Q ss_pred             C-----CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----cCCchHHHHHHHHHHhcCC
Q 043124          224 R-----NLEIAHIAVNELMILEPNNSGYCTLLLNMYAE----VSRWAEVTKIRVAMKELGI  275 (331)
Q Consensus       224 ~-----~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  275 (331)
                      |     ++++|.++|+++.   |.++..+..|..+|..    ..++++|...|++..+.|.
T Consensus       296 G~g~~~d~~~A~~~~~~Aa---~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          296 GKWVPADAKAAEAHFEKAV---GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             CSSSCCCHHHHHHHHHTTT---TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             CCCCCCCHHHHHHHHHHHh---CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            4     7778888777776   6667777777777766    3377777777777776553

>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=99.44  E-value=1.1e-12  Score=106.67  Aligned_cols=152  Identities=11%  Similarity=-0.010  Sum_probs=71.0

Q ss_pred             hCCChhHHHHHHHHHHHC-------CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHh------CC-CCchhHHHHHH
Q 043124           18 QNKQFREALDAFNEMKNS-------GISPDQVTMATVLSACAHLGALDLGREIHLYVMQI------GF-DIDVYIGSALV   83 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~   83 (331)
                      ..|++++|+..|++..+.       ..+....++..+...+...|++++|+..++++.+.      +- +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            445566666666555441       11112334555555555566666666665555443      11 11234455555


Q ss_pred             HHHHhhCCHHHHHHHHhhcCCC-----------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc------CCCC-cHHHH
Q 043124           84 DMYAKCGSLDRSLLVFFKLREK-----------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE------NVEP-NGVTF  145 (331)
Q Consensus        84 ~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~  145 (331)
                      .+|...|++++|.+.|++..+.           ...++..+...+...|++++|...++++.+.      +..| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            5555555555555555443310           1234444455555555555555555554432      0011 12334


Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhh
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ..+...+...|++++|...+++..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l  196 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEIL  196 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444555555555544444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.44  E-value=1.2e-11  Score=101.70  Aligned_cols=197  Identities=10%  Similarity=-0.056  Sum_probs=115.7

Q ss_pred             HHHHHccCCchHHHHHHHHHHHh----CCCCc-hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----C----hhhHHHH
Q 043124           48 LSACAHLGALDLGREIHLYVMQI----GFDID-VYIGSALVDMYAKCGSLDRSLLVFFKLREK-----N----LFCWNSI  113 (331)
Q Consensus        48 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~l  113 (331)
                      ...+...|++++|...|++..+.    |-++. ..+|+.+..+|.+.|++++|+..|++..+-     +    ..+++.+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44566677777777777776553    21111 456777777777777777777777655431     1    2366777


Q ss_pred             HHHHHhC-CCHHHHHHHHHHHHHcCC---CC-c-HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcH-----hHHH
Q 043124          114 IEGLAVH-GFAHEALAMFDRMIYENV---EP-N-GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEV-----EHYG  182 (331)
Q Consensus       114 i~~~~~~-~~~~~a~~~~~~m~~~~~---~p-~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~  182 (331)
                      ...|... |++++|+..|++..+...   .+ . ..++..+...+...|++++|+..|++..+...-.+..     ..|.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            7777775 777777777777665311   00 0 2456666777777777777777777766321111111     1455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCcHH------HHHHHHHHHh--hcCCHHHHHHHHHHHHhcCCCCc
Q 043124          183 CMVDLLSKAGLLEDALELIRSS-KFQPNAV------IWGALLGGCK--LHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~------~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      .+..++...|++++|...+++. .+.|+..      .+..++.++.  ..+++++|...++++..++|...
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~  274 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKI  274 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHH
Confidence            5666677777777777777763 3344321      2333444443  34557777777766666666543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.41  E-value=1.3e-11  Score=105.21  Aligned_cols=225  Identities=7%  Similarity=-0.054  Sum_probs=169.9

Q ss_pred             HHHHHHccCCchHHHHHHHHHHHhC--CC---CchhHHHHHHHHHHhhCCHHHHHHHHhhcCC-----C-----ChhhHH
Q 043124           47 VLSACAHLGALDLGREIHLYVMQIG--FD---IDVYIGSALVDMYAKCGSLDRSLLVFFKLRE-----K-----NLFCWN  111 (331)
Q Consensus        47 l~~~~~~~~~~~~a~~~~~~~~~~~--~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~-----~~~~~~  111 (331)
                      ....+...|++++|+..++++.+..  .+   ....++..+..+|...|++++|...+++..+     +     ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            4445678899999999999987642  11   1345788899999999999999988876542     1     134788


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHc----CCC-CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc---CCCCCcHhHHHH
Q 043124          112 SIIEGLAVHGFAHEALAMFDRMIYE----NVE-PNGVTFISVLSACTHAGLVEEGRRRFLSMTCG---YSITPEVEHYGC  183 (331)
Q Consensus       112 ~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~  183 (331)
                      .+...|...|++++|.+.|++..+.    +.+ ....++..+...+...|++++|...+++....   .+.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            9999999999999999999998763    211 12356778889999999999999999998841   022333677888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC----CC--CCc-HHHHHHHHHHHhhcCC---HHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          184 MVDLLSKAGLLEDALELIRSS----KF--QPN-AVIWGALLGGCKLHRN---LEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       184 l~~~~~~~~~~~~a~~~~~~~----~~--~p~-~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      +...+.+.|++++|...+++.    ..  .|. ...+..+...+...++   +.+|...+++. ...|.....+..++..
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHH
Confidence            999999999999999999862    11  232 3445555555777888   77887777763 2334445667789999


Q ss_pred             HHhcCCchHHHHHHHHHHh
Q 043124          254 YAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       254 ~~~~g~~~~a~~~~~~m~~  272 (331)
                      |...|++++|...+++..+
T Consensus       346 y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999998865

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.40  E-value=9.7e-12  Score=101.02  Aligned_cols=218  Identities=10%  Similarity=-0.029  Sum_probs=152.8

Q ss_pred             CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----------ChhhHHHHHHHHHhCCCHH
Q 043124           56 ALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-----------NLFCWNSIIEGLAVHGFAH  124 (331)
Q Consensus        56 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~  124 (331)
                      .+++|++++++......+....++..+..+|...|++++|...|++..+.           ...++..+...+...|+++
T Consensus        23 ~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  102 (283)
T 3edt_B           23 LCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYK  102 (283)
T ss_dssp             HHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHH
Confidence            35677777777665443446778889999999999999999998876521           3457889999999999999


Q ss_pred             HHHHHHHHHHHc------C-CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc------CCCCCcHhHHHHHHHHHHHc
Q 043124          125 EALAMFDRMIYE------N-VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG------YSITPEVEHYGCMVDLLSKA  191 (331)
Q Consensus       125 ~a~~~~~~m~~~------~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~  191 (331)
                      +|.+.|++..+.      . .+....++..+...+...|++++|...+++..+.      ...+....++..+...|...
T Consensus       103 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~  182 (283)
T 3edt_B          103 EAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQ  182 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHc
Confidence            999999998765      1 1234677888889999999999999999998743      11223467888899999999


Q ss_pred             CCHHHHHHHHHhC----------CCCCcH-HHHHHHHHHHhhc------CCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          192 GLLEDALELIRSS----------KFQPNA-VIWGALLGGCKLH------RNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       192 ~~~~~a~~~~~~~----------~~~p~~-~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                      |++++|...+++.          ...+.. ..+..+.......      ..+..+...++......|.....+..++.+|
T Consensus       183 g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~  262 (283)
T 3edt_B          183 GKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALY  262 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            9999999988752          123332 2333333333222      2234444444443334466667788899999


Q ss_pred             HhcCCchHHHHHHHHHHhc
Q 043124          255 AEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       255 ~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...|++++|..++++..+.
T Consensus       263 ~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          263 RRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999988753

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.36  E-value=1.9e-10  Score=93.41  Aligned_cols=238  Identities=11%  Similarity=0.002  Sum_probs=167.1

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      |+-..-.|++..++.-..++.   .......-..+.+++...|++..+.         .-.|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~---~~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFS---KVTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSS---CCCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhcC---ccchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHHHHh-ccc--
Confidence            566777899988887433322   1222233344567888888776421         2234443444444433 322  


Q ss_pred             HHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCcHHHHHHHHHHHhccCcHHHHHHHHHhh
Q 043124           93 DRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENV-EPNGVTFISVLSACTHAGLVEEGRRRFLSM  168 (331)
Q Consensus        93 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  168 (331)
                        |++.|++..+   ++..++..+..++...|++++|++++.+.+..|. .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 --a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 --NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             --CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              6777777653   4555667888899999999999999999877653 236777888889999999999999999999


Q ss_pred             hhcCCCCC-----cHhHHHHHHHH--HHHcC--CHHHHHHHHHhCC-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          169 TCGYSITP-----EVEHYGCMVDL--LSKAG--LLEDALELIRSSK-FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       169 ~~~~~~~~-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .+.   .|     +..+...|+.+  ....|  ++.+|..+|+++. ..|+..+...++.++...|++++|++.++.+.+
T Consensus       163 ~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          163 TNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             Hhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            832   55     34555556655  33334  8999999999864 345534444555588899999999999998776


Q ss_pred             c----------CCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          239 L----------EPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       239 ~----------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .          +|+++.+...+|......|+  +|.++++++.+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            5          58889898788888888887  88899999874

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.36  E-value=1.3e-10  Score=95.48  Aligned_cols=201  Identities=12%  Similarity=0.053  Sum_probs=151.9

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHC----CCCCC-HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC---C--ch
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNS----GISPD-QVTMATVLSACAHLGALDLGREIHLYVMQIGFD---I--DV   76 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~   76 (331)
                      ..|+.....|...|++++|...|.+....    |-+++ ..+|+.+..+|...|++++|+..+++.++....   +  ..
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            35788888999999999999999988653    22222 468899999999999999999999998765211   1  14


Q ss_pred             hHHHHHHHHHHhh-CCHHHHHHHHhhcCCC-----C----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH----
Q 043124           77 YIGSALVDMYAKC-GSLDRSLLVFFKLREK-----N----LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG----  142 (331)
Q Consensus        77 ~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~-----~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----  142 (331)
                      .+++.+..+|... |++++|+..|++..+.     +    ..+++.+...+.+.|++++|+..|++..+.......    
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            5788899999996 9999999999877642     1    346889999999999999999999999986432221    


Q ss_pred             --HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc------HhHHHHHHHHHH--HcCCHHHHHHHHHhCC-CCCcH
Q 043124          143 --VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE------VEHYGCMVDLLS--KAGLLEDALELIRSSK-FQPNA  210 (331)
Q Consensus       143 --~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~--~~~~~~~a~~~~~~~~-~~p~~  210 (331)
                        ..+..+..++...|++++|...|++..+   +.|+      ...+..++.++.  ..+++++|+..|+++. ..|+.
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQS---EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGC---C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHH
Confidence              2567778889999999999999999883   2333      123444555554  4578999999998753 44543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.35  E-value=1.4e-10  Score=93.44  Aligned_cols=206  Identities=9%  Similarity=-0.044  Sum_probs=136.2

Q ss_pred             chhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---C---hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCC--CCcHHHHH
Q 043124           75 DVYIGSALVDMYAKCGSLDRSLLVFFKLREK---N---LFCWNSIIEGLAVHGFAHEALAMFDRMIYENV--EPNGVTFI  146 (331)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~  146 (331)
                      +...+-.+...+.+.|++++|...|+++.+.   +   ..++..+..++.+.|++++|...|++..+...  +.....+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            4455556667777777777777777776542   2   45677777778888888888888888777531  12244555


Q ss_pred             HHHHHHhc--------cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHH
Q 043124          147 SVLSACTH--------AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLG  218 (331)
Q Consensus       147 ~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~  218 (331)
                      .+..++..        .|++++|...|+++.+..  +.+......+.......+..               ...+..+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            56666766        888888888888877432  11222222221111111111               112456777


Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhc----------CCchHHHHHHHHHHhcCCCCCCCccceE
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNS---GYCTLLLNMYAEV----------SRWAEVTKIRVAMKELGIEKRCPGSSWI  285 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~~~~~  285 (331)
                      .+...|++++|...++++++..|++.   ..+..++.+|...          |++++|...++++.+..  |+       
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~--p~-------  227 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF--PD-------  227 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC--TT-------
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC--CC-------
Confidence            89999999999999999999888854   4677888889876          89999999999998542  11       


Q ss_pred             EeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhc
Q 043124          286 EMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       286 ~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                                     +|........+..++..+++.
T Consensus       228 ---------------~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          228 ---------------SPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             ---------------CTHHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------ChHHHHHHHHHHHHHHHHHHh
Confidence                           233356667777777766653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=4e-10  Score=95.78  Aligned_cols=230  Identities=12%  Similarity=0.002  Sum_probs=167.9

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhhCCHHHHHHHHhhcCC-----CCh----hhH
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDV----YIGSALVDMYAKCGSLDRSLLVFFKLRE-----KNL----FCW  110 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~----~~~  110 (331)
                      .......+...|+++.|...+++.+......+.    .+++.+...+...|++++|.+.+++..+     .+.    .++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            334455667889999999999998886422222    2566778889999999999999987653     122    346


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHc----CCC--C-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC---CCCcHhH
Q 043124          111 NSIIEGLAVHGFAHEALAMFDRMIYE----NVE--P-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS---ITPEVEH  180 (331)
Q Consensus       111 ~~li~~~~~~~~~~~a~~~~~~m~~~----~~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~  180 (331)
                      ..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++......   .......
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            77888999999999999999988753    222  3 244566678889999999999999998773221   1112356


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhCC---CCC-cHHHHH-----HHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc----hH
Q 043124          181 YGCMVDLLSKAGLLEDALELIRSSK---FQP-NAVIWG-----ALLGGCKLHRNLEIAHIAVNELMILEPNNSG----YC  247 (331)
Q Consensus       181 ~~~l~~~~~~~~~~~~a~~~~~~~~---~~p-~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~  247 (331)
                      +..+...+...|++++|...+++..   -.+ ....+.     ..+..+...|++++|...++++....|.+..    .+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            7778888999999999999987531   111 111121     2333477899999999999999886654322    35


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          248 TLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       248 ~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+..++...|++++|...+++..+.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~  282 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNEN  282 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            67889999999999999999988653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.31  E-value=8.4e-10  Score=96.32  Aligned_cols=255  Identities=9%  Similarity=-0.049  Sum_probs=178.7

Q ss_pred             hhHHHHHHHHHhCCChhH---HHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFRE---ALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV   83 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   83 (331)
                      ..+..|...|...+..++   +.+.+......|   +...+..|...|...+.++.+........+.-...+...+..|.
T Consensus       107 ~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg  183 (452)
T 3e4b_A          107 NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELA  183 (452)
T ss_dssp             SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHH
Confidence            356677777777665444   444455544444   34566677778877776666655544444332333445888888


Q ss_pred             HHHHhhC---CHHHHHHHHhhcCCC---ChhhHHHHHHHHHhC----CCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH-H
Q 043124           84 DMYAKCG---SLDRSLLVFFKLREK---NLFCWNSIIEGLAVH----GFAHEALAMFDRMIYENVEPNGVTFISVLSA-C  152 (331)
Q Consensus        84 ~~~~~~g---~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~  152 (331)
                      .+|...|   +.++|.+.|++..+.   +...+..+...|...    +++++|+..|++.. .|   +...+..+... +
T Consensus       184 ~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~  259 (452)
T 3e4b_A          184 TVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLY  259 (452)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHH
T ss_pred             HHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHH
Confidence            8999899   888999998877543   333446777777655    68999999999987 43   33444445544 3


Q ss_pred             --hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcC-----CHHHHHHHHHhCCCCCcHHHHHHHHHHHhh---
Q 043124          153 --THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAG-----LLEDALELIRSSKFQPNAVIWGALLGGCKL---  222 (331)
Q Consensus       153 --~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~---  222 (331)
                        ...++.++|...|++.. ..|   +...+..|...|. .|     ++++|++.|++.- .-+...+..|...|..   
T Consensus       260 ~~~~~~d~~~A~~~~~~Aa-~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~~~A~~~Lg~~y~~G~g  333 (452)
T 3e4b_A          260 DFPELGDVEQMMKYLDNGR-AAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GREVAADYYLGQIYRRGYL  333 (452)
T ss_dssp             HSGGGCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TTCHHHHHHHHHHHHTTTT
T ss_pred             hCCCCCCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHCCCC
Confidence              56889999999999988 433   5566777777776 55     9999999999876 5667777777777665   


Q ss_pred             -cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----cCCchHHHHHHHHHHhcCCC
Q 043124          223 -HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE----VSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       223 -~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~  276 (331)
                       ..++++|..+++++.+.  .++.....|..+|..    ..+.++|...++...+.|..
T Consensus       334 ~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          334 GKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             SSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             CCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence             34899999999988763  345566778888875    45888999999998887743

>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=99.29  E-value=9.7e-12  Score=91.42  Aligned_cols=142  Identities=14%  Similarity=-0.011  Sum_probs=95.6

Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcC
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHR  224 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~  224 (331)
                      |...+...|++++|+..+.... .  ..|+ ...+-.+...|.+.|++++|++.|++. ...| +...|..+..++...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~-~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST-P--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS-C--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc-c--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3345566677777777777766 2  1332 444556777777888888888877763 3445 4667777777788888


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHH-HHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCC
Q 043124          225 NLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKI-RVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPA  303 (331)
Q Consensus       225 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  303 (331)
                      ++++|...++++++++|+++..+..++.+|.+.|++++|... +++..+                           .+|+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~---------------------------l~P~  132 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK---------------------------LFPG  132 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH---------------------------HSTT
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH---------------------------hCcC
Confidence            888888888888888888788877888888888887765554 466552                           3477


Q ss_pred             chHHHHHHHHHHHHHH
Q 043124          304 SDEIYSSLSKLDEQLK  319 (331)
Q Consensus       304 ~~~~~~~l~~l~~~~~  319 (331)
                      ++.++...++++...|
T Consensus       133 ~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A          133 SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             CHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            7777777777665433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.28  E-value=4.8e-10  Score=90.33  Aligned_cols=167  Identities=7%  Similarity=-0.046  Sum_probs=113.0

Q ss_pred             CCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC--Cchh
Q 043124            3 ARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPD---QVTMATVLSACAHLGALDLGREIHLYVMQIGFD--IDVY   77 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~   77 (331)
                      +.+...+-.+...+.+.|++++|+..|+++.+.. +.+   ...+..+..++...|++++|+..|+++++....  ....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            3456667777888888899999999998888763 223   567777888888889999999998888887421  2245


Q ss_pred             HHHHHHHHHHh--------hCCHHHHHHHHhhcCC--C-ChhhH-----------------HHHHHHHHhCCCHHHHHHH
Q 043124           78 IGSALVDMYAK--------CGSLDRSLLVFFKLRE--K-NLFCW-----------------NSIIEGLAVHGFAHEALAM  129 (331)
Q Consensus        78 ~~~~l~~~~~~--------~g~~~~a~~~~~~~~~--~-~~~~~-----------------~~li~~~~~~~~~~~a~~~  129 (331)
                      ++..+..++..        .|++++|...|+++.+  | +....                 ..+...|...|++++|+..
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            66677778887        8888888888887764  2 22223                 4456666677777777777


Q ss_pred             HHHHHHcCCCC--cHHHHHHHHHHHhcc----------CcHHHHHHHHHhhhh
Q 043124          130 FDRMIYENVEP--NGVTFISVLSACTHA----------GLVEEGRRRFLSMTC  170 (331)
Q Consensus       130 ~~~m~~~~~~p--~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~  170 (331)
                      |+++.+.....  ....+..+..++...          |++++|...|+.+.+
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~  223 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQ  223 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHH
Confidence            77766643111  234455555555544          666777777776663

>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=99.25  E-value=5.2e-10  Score=79.79  Aligned_cols=128  Identities=14%  Similarity=0.126  Sum_probs=62.3

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHH
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLS  189 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  189 (331)
                      |..++..+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++....  +.             
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~-------------   67 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PR-------------   67 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TT-------------
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CC-------------
Confidence            4444555555555555555555554432 2234444444455555555555555555544211  11             


Q ss_pred             HcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHH
Q 043124          190 KAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       190 ~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  269 (331)
                                         +...+..+...+...|++++|.+.++++....|.+...+..++.++.+.|++++|...+++
T Consensus        68 -------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           68 -------------------SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             -------------------CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             -------------------chHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHH
Confidence                               2333344444444555555555555555555554444445555555555555555555555


Q ss_pred             HHh
Q 043124          270 MKE  272 (331)
Q Consensus       270 m~~  272 (331)
                      +.+
T Consensus       129 ~~~  131 (136)
T 2fo7_A          129 ALE  131 (136)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.25  E-value=6.6e-10  Score=90.92  Aligned_cols=177  Identities=8%  Similarity=-0.061  Sum_probs=143.3

Q ss_pred             HHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhc
Q 043124           92 LDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCG  171 (331)
Q Consensus        92 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  171 (331)
                      .+...+.+......+...+..+...+.+.|++++|...|++..+.. +-+...+..+...+...|++++|...++++...
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~  180 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ  180 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh
Confidence            4455566666665566778889999999999999999999999874 456778888999999999999999999999833


Q ss_pred             CCCCCcHhHHH-HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC--cch
Q 043124          172 YSITPEVEHYG-CMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN--SGY  246 (331)
Q Consensus       172 ~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~  246 (331)
                         .|+..... .....+...++.++|...+++. ...| +...+..+...+...|++++|...++++++.+|++  ...
T Consensus       181 ---~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a  257 (287)
T 3qou_A          181 ---DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT  257 (287)
T ss_dssp             ---GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH
T ss_pred             ---hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH
Confidence               34533332 2233466778888888888763 3445 57888889999999999999999999999999988  778


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          247 CTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       247 ~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +..++.+|...|+.++|...+++...
T Consensus       258 ~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          258 RXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            89999999999999999999887653

>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=99.25  E-value=4.3e-10  Score=80.19  Aligned_cols=95  Identities=17%  Similarity=0.159  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCC-C-CCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSSK-F-QPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV  257 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~~-~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  257 (331)
                      .+..+...+...|++++|..+++++. . ..+...+..+...+...|++++|...++++....|.+...+..++..+...
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            46677888888899999988887642 2 235677888888899999999999999999999999888999999999999


Q ss_pred             CCchHHHHHHHHHHhcC
Q 043124          258 SRWAEVTKIRVAMKELG  274 (331)
Q Consensus       258 g~~~~a~~~~~~m~~~~  274 (331)
                      |++++|...++++.+..
T Consensus        83 ~~~~~A~~~~~~~~~~~   99 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD   99 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC
T ss_pred             cCHHHHHHHHHHHHHhC
Confidence            99999999999998754

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.25  E-value=9.6e-10  Score=86.53  Aligned_cols=184  Identities=15%  Similarity=0.035  Sum_probs=126.6

Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCC--CC----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-Cc-HHHHHH
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLRE--KN----LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVE-PN-GVTFIS  147 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~-~~~~~~  147 (331)
                      ...+..+...+.+.|++++|...|+++.+  |+    ...+..++.++.+.|++++|+..|+++.+.... +. ...+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            44556677888899999999999998764  32    246888889999999999999999998876421 11 123444


Q ss_pred             HHHHHhc------------------cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCc
Q 043124          148 VLSACTH------------------AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPN  209 (331)
Q Consensus       148 ll~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~  209 (331)
                      +..++..                  .|+.++|...|+++.+.+  +-+...+.......    ......           
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~----~~~~~~-----------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLV----FLKDRL-----------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHH----HHHHHH-----------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHH----HHHHHH-----------
Confidence            4444443                  467888888888877332  22222222211110    000000           


Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          210 AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS---GYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       210 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      ......+...+...|++++|...++++++..|+++   ..+..++.+|.+.|++++|.+.++.+...+..
T Consensus       147 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            01113455668899999999999999999999875   55788999999999999999999998876543

>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=99.24  E-value=3.6e-10  Score=103.74  Aligned_cols=149  Identities=11%  Similarity=-0.024  Sum_probs=78.5

Q ss_pred             HhCCChhHHHHHHHHHH--------HCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124           17 SQNKQFREALDAFNEMK--------NSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus        17 ~~~~~~~~a~~~~~~m~--------~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      ...|++++|++.|++..        +.. +.+...+..+..++...|++++|+..++++++.. +.+...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            44555555555555555        221 2233445555555555555555555555555543 2244555555555555


Q ss_pred             hCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           89 CGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      .|++++|.+.|++..+   .+...|..+..++.+.|++++ ++.|++..+.+ +.+...+..+..++.+.|++++|...|
T Consensus       480 ~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5555555555555432   133455555555555555555 55555555543 233445555555555555555555555


Q ss_pred             Hhhh
Q 043124          166 LSMT  169 (331)
Q Consensus       166 ~~~~  169 (331)
                      ++..
T Consensus       558 ~~al  561 (681)
T 2pzi_A          558 DEVP  561 (681)
T ss_dssp             HTSC
T ss_pred             Hhhc
Confidence            5555

>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=99.23  E-value=7.9e-11  Score=108.07  Aligned_cols=169  Identities=9%  Similarity=-0.099  Sum_probs=136.7

Q ss_pred             HhhCCHHHHHHHHhhcC-----------CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc
Q 043124           87 AKCGSLDRSLLVFFKLR-----------EKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA  155 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  155 (331)
                      ...|++++|++.|++..           ..+...+..+..++...|++++|++.|+++.+.+ +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            67889999999988775           2356788888999999999999999999988864 45677888888889999


Q ss_pred             CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHH
Q 043124          156 GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAV  233 (331)
Q Consensus       156 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  233 (331)
                      |++++|...|++..+..  +-+...+..+..++.+.|++++ ++.|++. ...| +...+..+..++...|++++|...+
T Consensus       481 g~~~~A~~~~~~al~l~--P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF--PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999988432  3346778888889999999999 8888863 3445 4678888888899999999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhcCC
Q 043124          234 NELMILEPNNSGYCTLLLNMYAEVSR  259 (331)
Q Consensus       234 ~~~~~~~p~~~~~~~~l~~~~~~~g~  259 (331)
                      +++++.+|++...+..+..++...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999999988888888888877655

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.23  E-value=1.1e-09  Score=88.97  Aligned_cols=179  Identities=11%  Similarity=0.005  Sum_probs=135.2

Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----ChhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043124           60 GREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-----NLFCWNSIIEGLAVHGFAHEALAMFDRMI  134 (331)
Q Consensus        60 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~  134 (331)
                      ++..+++..+.+ +++..++..+..++...|++++|++++.+....     +...+..++..+.+.|+.+.|.+.+++|.
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            677777777665 455566678899999999999999999987443     45678889999999999999999999998


Q ss_pred             HcCCCC-----cHHHHHHHHHH--HhccC--cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 043124          135 YENVEP-----NGVTFISVLSA--CTHAG--LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK  205 (331)
Q Consensus       135 ~~~~~p-----~~~~~~~ll~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  205 (331)
                      +.  .|     +..+...++.+  ....|  +..+|..+|+++...   .|+..+...++.++.+.|++++|.+.++.+.
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            85  56     35555556655  33334  899999999999843   3543333444458899999999999987532


Q ss_pred             -C----------CC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          206 -F----------QP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       206 -~----------~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                       .          .| +..+...+|......|+  .|.++++++....|+++..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence             1          24 46666566666666776  8999999999999997655

>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=99.22  E-value=2e-11  Score=89.69  Aligned_cols=143  Identities=8%  Similarity=-0.078  Sum_probs=97.9

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL  193 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  193 (331)
                      ...+...|++++|++.+++..... +-+...+..+...|.+.|++++|+..|++..+..  +-+...|..+..+|...|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ--ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCc
Confidence            344455666777777777765431 1223444556677777777777777777777332  3346677777778888888


Q ss_pred             HHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHH-HHHHHHhcCCCCcchHHHHHHHHHhcCC
Q 043124          194 LEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHI-AVNELMILEPNNSGYCTLLLNMYAEVSR  259 (331)
Q Consensus       194 ~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  259 (331)
                      +++|+..|++. ...| +...+..+...+...|++++|.+ +++++++++|+++.+|......+...|+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888887763 3455 46677778888888888766554 4688888999988888877888877775

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.21  E-value=1e-09  Score=85.24  Aligned_cols=183  Identities=14%  Similarity=0.063  Sum_probs=97.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPD-QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYA   87 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (331)
                      +-.....+...|++++|+..|++..+..  |+ ...|...     .....              ..........+..+|.
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~-----~~~~~--------------~~~~~~~~~~lg~~~~   65 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWT-----NVDKN--------------SEISSKLATELALAYK   65 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHH-----HSCTT--------------SHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHh-----hhcch--------------hhhhHHHHHHHHHHHH
Confidence            3344556667777777777777776642  32 2233220     00000              0001112233666666


Q ss_pred             hhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc--HHHHH
Q 043124           88 KCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGL--VEEGR  162 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~  162 (331)
                      +.|++++|...|++..+   .+..+|..+..++...|++++|...|++..+.+ |.+..++..+...+...|.  .+.+.
T Consensus        66 ~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~  144 (208)
T 3urz_A           66 KNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLE  144 (208)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHH
Confidence            77777777777666543   245566677777777777777777777776653 3345666666666554443  33445


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcHHHHHHH
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPNAVIWGAL  216 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~~~~~~l  216 (331)
                      ..++...   ...|....+.....++...|++++|+..|++ +...|+......+
T Consensus       145 ~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l  196 (208)
T 3urz_A          145 TDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTL  196 (208)
T ss_dssp             HHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHH
T ss_pred             HHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            5555444   1122222333344455566777777777765 4456665544433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.20  E-value=2.6e-09  Score=82.94  Aligned_cols=181  Identities=7%  Similarity=-0.065  Sum_probs=125.6

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCC
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGF  122 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~  122 (331)
                      .+......+...|++++|+..|+++++.. +.+...+...     .....          ........+.+..++.+.|+
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~-----~~~~~----------~~~~~~~~~~lg~~~~~~g~   69 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWT-----NVDKN----------SEISSKLATELALAYKKNRN   69 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHH-----HSCTT----------SHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHh-----hhcch----------hhhhHHHHHHHHHHHHHCCC
Confidence            34444556667788888888888887763 1122222110     01100          00112334558899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC--HHHHHHH
Q 043124          123 AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL--LEDALEL  200 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~  200 (331)
                      +++|+..|++..+.+ |-+...+..+...+...|++++|...|++..+..  +.+...+..+..+|...|+  .+.+...
T Consensus        70 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~~~~~~~  146 (208)
T 3urz_A           70 YDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE--ADNLAANIFLGNYYYLTAEQEKKKLETD  146 (208)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            999999999999875 5578888999999999999999999999998432  3457788888888876654  4455666


Q ss_pred             HHhCCCCCcH--HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          201 IRSSKFQPNA--VIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       201 ~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      ++... .|+.  ..+.....++...|++++|...|++++++.|++
T Consensus       147 ~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          147 YKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            66543 3443  344445556778899999999999999999984

>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=99.17  E-value=7e-10  Score=91.70  Aligned_cols=219  Identities=11%  Similarity=0.025  Sum_probs=145.6

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHH
Q 043124           19 NKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLV   98 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~   98 (331)
                      .|++++|.+++++..+.. +..      +   +...++++.|...|.++               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            467888888888877642 111      0   11146777777776654               3456677888887777


Q ss_pred             HhhcCCC-----C----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHhccCcHHHHHHH
Q 043124           99 FFKLREK-----N----LFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NVEP-NGVTFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        99 ~~~~~~~-----~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      |.+..+-     +    ..+|+.+...|...|++++|+..|++..+.    |-+. ...++..+...|.. |++++|+..
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            7655421     1    346788888888888888888888887653    2111 13567777788888 999999999


Q ss_pred             HHhhhhcC---CCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC-------CCCc-HHHHHHHHHHHhhcCCHHHHHHH
Q 043124          165 FLSMTCGY---SITP-EVEHYGCMVDLLSKAGLLEDALELIRSSK-------FQPN-AVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       165 ~~~~~~~~---~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~p~-~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      |++..+..   +-.+ ...++..+...|.+.|++++|+..+++..       ..+. ...+..+..++...|++++|...
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            98876321   1111 14577788888999999999998887531       1111 22556666667788999999999


Q ss_pred             HHHHHhcCCCCcch-----HHHHHHHHHhcCCchHHHH
Q 043124          233 VNELMILEPNNSGY-----CTLLLNMYAEVSRWAEVTK  265 (331)
Q Consensus       233 ~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~  265 (331)
                      +++++ ..|.....     ...++.++ ..|+.+.+..
T Consensus       218 ~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          218 VRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            99999 88865433     23445555 5677666555

>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=99.16  E-value=1.1e-09  Score=82.65  Aligned_cols=159  Identities=10%  Similarity=0.048  Sum_probs=102.2

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH-H
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL-L  188 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~  188 (331)
                      +..+...+...|++++|...|++..+.. |.+...+..+...+...|++++|...|+......   |+...+..+... +
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~---p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY---QDNSYKSLIAKLEL   84 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG---CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc---CChHHHHHHHHHHH
Confidence            4445555666666666666666665542 3345556666666666677777777666665222   232222221111 1


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC--cchHHHHHHHHHhcCCchHHH
Q 043124          189 SKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN--SGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      ...+...+|+..+++. ...| +...+..+..++...|++++|...++++++..|+.  ...+..++.++...|+.++|.
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             HhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            1222223355566542 3445 47778888888999999999999999999988865  447788999999999999999


Q ss_pred             HHHHHHHh
Q 043124          265 KIRVAMKE  272 (331)
Q Consensus       265 ~~~~~m~~  272 (331)
                      ..|++...
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98887653

>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=99.16  E-value=4.7e-09  Score=81.74  Aligned_cols=158  Identities=8%  Similarity=-0.119  Sum_probs=77.8

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC----cHHHHHHHHHhhhhcCCCCCcHhHHHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAG----LVEEGRRRFLSMTCGYSITPEVEHYGC  183 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~  183 (331)
                      .++..+...|...+++++|++.|++..+.|   +...+..+...|.. +    +.++|..+|++.. ..+   +...+..
T Consensus        19 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~-~~g---~~~a~~~   90 (212)
T 3rjv_A           19 RAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV-EAG---SKSGEIV   90 (212)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH-HTT---CHHHHHH
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH-HCC---CHHHHHH
Confidence            334444444444444444444444444433   22333333334443 3    4555555555544 211   2334444


Q ss_pred             HHHHHHH----cCCHHHHHHHHHhC-CCCCc---HHHHHHHHHHHhh----cCCHHHHHHHHHHHHhcCCCCcchHHHHH
Q 043124          184 MVDLLSK----AGLLEDALELIRSS-KFQPN---AVIWGALLGGCKL----HRNLEIAHIAVNELMILEPNNSGYCTLLL  251 (331)
Q Consensus       184 l~~~~~~----~~~~~~a~~~~~~~-~~~p~---~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  251 (331)
                      |...|..    .+++++|++.|++. ...|+   ...+..|...|..    .+++++|..+++++.+. |.++..+..|.
T Consensus        91 Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~~Lg  169 (212)
T 3rjv_A           91 LARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEYWAG  169 (212)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHHHHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHHHHH
Confidence            4444444    45555555555542 22221   4455555555555    55666666666666665 33344555666


Q ss_pred             HHHHhc-C-----CchHHHHHHHHHHhcC
Q 043124          252 NMYAEV-S-----RWAEVTKIRVAMKELG  274 (331)
Q Consensus       252 ~~~~~~-g-----~~~~a~~~~~~m~~~~  274 (331)
                      .+|... |     ++++|...+++..+.|
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            666543 2     6666776666666555

>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=99.15  E-value=1.1e-09  Score=98.55  Aligned_cols=160  Identities=13%  Similarity=0.029  Sum_probs=123.9

Q ss_pred             hCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHH
Q 043124           89 CGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRF  165 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  165 (331)
                      .|++++|.+.|++..+.   +...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...|++++|...|
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            47899999999988753   56789999999999999999999999999874 456788888999999999999999999


Q ss_pred             HhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhc---CCHHHHHHHHHHHHhcC
Q 043124          166 LSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLH---RNLEIAHIAVNELMILE  240 (331)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  240 (331)
                      ++..+..  +.+...+..+..+|...|++++|.+.+++. ...| +...+..+..++...   |+.++|.+.++++++..
T Consensus        81 ~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAA--PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9998432  345778899999999999999999999874 3344 577888888899999   99999999999999999


Q ss_pred             CCCcchHHHHH
Q 043124          241 PNNSGYCTLLL  251 (331)
Q Consensus       241 p~~~~~~~~l~  251 (331)
                      |.+...|..+.
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99888876555

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.14  E-value=2.8e-09  Score=87.17  Aligned_cols=157  Identities=8%  Similarity=-0.036  Sum_probs=65.4

Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH-HHHHHH
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTF-ISVLSA  151 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~  151 (331)
                      ...+..+...+...|++++|...|++..+  | +...+..+...+.+.|++++|...++++....  |+.... ......
T Consensus       117 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~  194 (287)
T 3qou_A          117 EELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHH
Confidence            33344444444444444444444444331  1 33344444444444444444444444443331  222111 111122


Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc---HHHHHHHHHHHhhcCCHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN---AVIWGALLGGCKLHRNLE  227 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~---~~~~~~l~~~~~~~~~~~  227 (331)
                      +...++.+.|...+++.....  +.+...+..+...+...|++++|++.+++. ...|+   ...+..++..+...|+.+
T Consensus       195 l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             HHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence            333344444444444444221  223444444444445555555554444432 11221   334444444444555555


Q ss_pred             HHHHHHHHH
Q 043124          228 IAHIAVNEL  236 (331)
Q Consensus       228 ~a~~~~~~~  236 (331)
                      .|...+++.
T Consensus       273 ~a~~~~r~a  281 (287)
T 3qou_A          273 ALASXYRRQ  281 (287)
T ss_dssp             HHHHHHHHH
T ss_pred             cHHHHHHHH
Confidence            554444444

>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=99.12  E-value=2.6e-09  Score=96.12  Aligned_cols=147  Identities=9%  Similarity=-0.099  Sum_probs=110.6

Q ss_pred             cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHH
Q 043124           54 LGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMF  130 (331)
Q Consensus        54 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~  130 (331)
                      .|++++|+..++++.+.. +.+...+..+...+...|++++|.+.|++..+.   +..+|..+..++...|++++|.+.|
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            478899999999988764 446788999999999999999999999987653   5678999999999999999999999


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc---CCHHHHHHHHHhC
Q 043124          131 DRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA---GLLEDALELIRSS  204 (331)
Q Consensus       131 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~  204 (331)
                      ++..+.. +.+...+..+...+...|++++|...|++..+..  +.+...+..+..++...   |++++|.+.+++.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9999874 4567888889999999999999999999988432  34577888899999999   9999999999863

>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=2.1e-07  Score=76.17  Aligned_cols=230  Identities=9%  Similarity=-0.012  Sum_probs=171.9

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC--CchHHHHHHHHHHHhCCCCchhHHHHHHHHH----Hhh--
Q 043124           18 QNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG--ALDLGREIHLYVMQIGFDIDVYIGSALVDMY----AKC--   89 (331)
Q Consensus        18 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~--   89 (331)
                      +....++|+.+++++...+ +-+...|+.-..++...|  ++++++..++.++... +-+..+|+.-..++    ...  
T Consensus        45 ~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           45 AEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTT
T ss_pred             cCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccc
Confidence            3344568999999999874 335567787777888888  9999999999999885 44666777665555    555  


Q ss_pred             -CCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHH--HHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc------
Q 043124           90 -GSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAH--EALAMFDRMIYENVEPNGVTFISVLSACTHAGL------  157 (331)
Q Consensus        90 -g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~------  157 (331)
                       +++++++++++.+.+   ++..+|+.-.-.+.+.|.++  ++++.++++.+.+ +-|-..|+.-...+.+.+.      
T Consensus       123 ~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          123 DFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhh
Confidence             788999999988875   35667877777888888888  9999999999876 4567777766666666665      


Q ss_pred             HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHH-HHHHHHhCC-C----CCcHHHHHHHHHHHhhcCCHHHHHH
Q 043124          158 VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLED-ALELIRSSK-F----QPNAVIWGALLGGCKLHRNLEIAHI  231 (331)
Q Consensus       158 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~-~----~p~~~~~~~l~~~~~~~~~~~~a~~  231 (331)
                      +++++..++.+....  +-+...|+.+-..+.+.|+... +.++..+.- .    ..+...+..+..++.+.|+.++|.+
T Consensus       202 ~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~  279 (306)
T 3dra_A          202 IDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRT  279 (306)
T ss_dssp             HHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHH
Confidence            888888888888432  5567888888888888877544 445555432 1    2356778888888888899999999


Q ss_pred             HHHHHHh-cCCCCcchHHHHHH
Q 043124          232 AVNELMI-LEPNNSGYCTLLLN  252 (331)
Q Consensus       232 ~~~~~~~-~~p~~~~~~~~l~~  252 (331)
                      +++.+.+ .+|....+|...+.
T Consensus       280 ~~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          280 VYDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHHhccChHHHHHHHHHHh
Confidence            9999886 78887777765443

>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=99.09  E-value=5.1e-08  Score=88.53  Aligned_cols=242  Identities=9%  Similarity=-0.015  Sum_probs=181.1

Q ss_pred             hhHHHHHHHHHhCC-------ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHH-HHHHHHHHhCCCCchhH
Q 043124            7 ISWTTMITCYSQNK-------QFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGR-EIHLYVMQIGFDIDVYI   78 (331)
Q Consensus         7 ~~~~~li~~~~~~~-------~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~   78 (331)
                      ..|...+.---..+       ..+.+..+|++.... .+-+...|...+..+...|+.+.|. .+++.+... .+.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            45666665544332       134566789888876 3557788888888888889999996 999999876 4556777


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHhhcCC-------------CC------------hhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043124           79 GSALVDMYAKCGSLDRSLLVFFKLRE-------------KN------------LFCWNSIIEGLAVHGFAHEALAMFDRM  133 (331)
Q Consensus        79 ~~~l~~~~~~~g~~~~a~~~~~~~~~-------------~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m  133 (331)
                      |..++....+.|++++|.++|+++.+             |+            ..+|...+....+.|..+.|..+|.+.
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88889999999999999999998764             21            236888888888899999999999999


Q ss_pred             HHc-CCCCcHHHHHHHHHHHhc-cCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC--
Q 043124          134 IYE-NVEPNGVTFISVLSACTH-AGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP--  208 (331)
Q Consensus       134 ~~~-~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p--  208 (331)
                      .+. + .++...|...+..-.+ .++.+.|..+|+...+.+  +-+...+...++.....|+.+.|..+|++. ...|  
T Consensus       461 ~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          461 RRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            876 3 1223333332222223 356899999999998553  445667788888888999999999999973 3334  


Q ss_pred             --cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          209 --NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       209 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                        ....|...+..-...|+.+.+.++.+++.+..|++..+ ..++.-|
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~~-~~f~~ry  584 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNKL-EEFTNKY  584 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCHH-HHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcHH-HHHHHHh
Confidence              35678888888889999999999999999999987654 4444444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.09  E-value=2.5e-09  Score=75.85  Aligned_cols=94  Identities=11%  Similarity=0.057  Sum_probs=62.2

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 043124          179 EHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       179 ~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  256 (331)
                      ..+......|.+.|++++|++.|++. ...| +...|..+..++...|++++|...++++++++|++...|..++.+|..
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            44555666666777777777766652 2333 456666666667777777777777777777777777777777777777


Q ss_pred             cCCchHHHHHHHHHHh
Q 043124          257 VSRWAEVTKIRVAMKE  272 (331)
Q Consensus       257 ~g~~~~a~~~~~~m~~  272 (331)
                      .|++++|...|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            7777777777776653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.07  E-value=1.3e-08  Score=80.01  Aligned_cols=185  Identities=13%  Similarity=0.025  Sum_probs=107.0

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC-C-CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCch---hHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGIS-P-DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDV---YIG   79 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   79 (331)
                      +...+..+...+.+.|++++|+..|+++.+.... | ....+..+..++...|++++|+..|+++++.... +.   .++
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~-~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT-HPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCcHHHHH
Confidence            3445666778888999999999999999876322 1 1356778888999999999999999999987432 22   244


Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH---------------
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVT---------------  144 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---------------  144 (331)
                      ..+..++...|..     .+        ..|..+...+...|++++|...|+++++.. |-+...               
T Consensus        82 ~~~g~~~~~~~~~-----~~--------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~~~~~~~~  147 (225)
T 2yhc_A           82 YMRGLTNMALDDS-----AL--------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLVFLKDRLA  147 (225)
T ss_dssp             HHHHHHHHHHHC---------------------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhh-----hh--------hhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHHHHHHHHH
Confidence            4555555543210     00        011112222223344444444444444331 111111               


Q ss_pred             --HHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          145 --FISVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       145 --~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                        ...+...+.+.|++++|...|+.+.+.+.-.| ....+..+..+|.+.|++++|.+.++.+
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l  210 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKII  210 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence              12345567777777777777777774431111 1245666777777777777777777653

>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=99.07  E-value=6.6e-09  Score=80.70  Aligned_cols=128  Identities=13%  Similarity=-0.011  Sum_probs=109.7

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...+..+...+...|++++|+..|++..    .|+...+..+..++...|++++|+..++++.+.. +.+...+..+..
T Consensus         5 ~~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~   79 (213)
T 1hh8_A            5 EAISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            45567778889999999999999998873    5688899999999999999999999999999885 456788999999


Q ss_pred             HHHhhCCHHHHHHHHhhcCCC---Ch----------------hhHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Q 043124           85 MYAKCGSLDRSLLVFFKLREK---NL----------------FCWNSIIEGLAVHGFAHEALAMFDRMIYEN  137 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~---~~----------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  137 (331)
                      +|...|++++|.+.|++..+.   +.                .++..+..++...|++++|.+.|++..+..
T Consensus        80 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           80 LYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999999877541   22                678889999999999999999999998764

>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=99.06  E-value=2.2e-08  Score=77.96  Aligned_cols=170  Identities=8%  Similarity=-0.054  Sum_probs=107.4

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC----CHHHHHHHH
Q 043124           24 EALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG----SLDRSLLVF   99 (331)
Q Consensus        24 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~a~~~~   99 (331)
                      +|++.|++..+.|   ++..+..|...+...+++++|...|++..+.|   +...+..|...|.. +    +.++|.+.|
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            4556666666653   55666667777777777777777777776654   44556666666666 5    677777777


Q ss_pred             hhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHhc----cCcHHHHHHHHHhhh
Q 043124          100 FKLREK-NLFCWNSIIEGLAV----HGFAHEALAMFDRMIYENVE-PNGVTFISVLSACTH----AGLVEEGRRRFLSMT  169 (331)
Q Consensus       100 ~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~  169 (331)
                      ++..++ +..++..+...|..    .+++++|++.|++..+.|.. .+...+..|...|..    .++.++|..+|++..
T Consensus        77 ~~A~~~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           77 EKAVEAGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            766543 55566667776666    66777777777777665421 014555556666665    667777777777776


Q ss_pred             hcCCCCCcHhHHHHHHHHHHHc-C-----CHHHHHHHHHh
Q 043124          170 CGYSITPEVEHYGCMVDLLSKA-G-----LLEDALELIRS  203 (331)
Q Consensus       170 ~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~  203 (331)
                      +.   ..+...+..|...|... |     ++++|...|++
T Consensus       157 ~~---~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~  193 (212)
T 3rjv_A          157 SL---SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNV  193 (212)
T ss_dssp             HT---SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHH
T ss_pred             Hc---CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHH
Confidence            22   22334555566666543 2     67777777765

>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=99.06  E-value=4.2e-09  Score=79.41  Aligned_cols=52  Identities=6%  Similarity=-0.065  Sum_probs=21.0

Q ss_pred             HHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhc
Q 043124           50 ACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKL  102 (331)
Q Consensus        50 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  102 (331)
                      .+...|++++|...++++++.. +.+...+..+..++...|++++|...|++.
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a   66 (176)
T 2r5s_A           15 ELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATI   66 (176)
T ss_dssp             HHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTC
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            3334444444444444433331 123333444444444444444444444443

>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=4.4e-08  Score=80.26  Aligned_cols=161  Identities=9%  Similarity=-0.066  Sum_probs=118.0

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcC-CCCcHH----HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc----HhHHH
Q 043124          112 SIIEGLAVHGFAHEALAMFDRMIYEN-VEPNGV----TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE----VEHYG  182 (331)
Q Consensus       112 ~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~  182 (331)
                      ..+..+...|++++|...+++..+.. ..|+..    .+..+...+...+++++|...|++..+...-.++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            34667888899999999998887643 122221    2334666677788999999999998842211222    33688


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC--------CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC------CcchH
Q 043124          183 CMVDLLSKAGLLEDALELIRSS--------KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPN------NSGYC  247 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~--------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~  247 (331)
                      .+...|...|++++|+..+++.        ...+. ..++..+...|...|++++|...++++++..+.      ...+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            8888999999999998888753        11222 346788888899999999999999999884322      25678


Q ss_pred             HHHHHHHHhcCC-chHHHHHHHHHHh
Q 043124          248 TLLLNMYAEVSR-WAEVTKIRVAMKE  272 (331)
Q Consensus       248 ~~l~~~~~~~g~-~~~a~~~~~~m~~  272 (331)
                      ..++.+|.+.|+ +++|...+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            889999999995 5999999888764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.03  E-value=1e-07  Score=77.98  Aligned_cols=216  Identities=12%  Similarity=0.031  Sum_probs=168.7

Q ss_pred             ccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC--CHHHHHHHHhhcCCC---ChhhHHHHHHHH----HhC---
Q 043124           53 HLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG--SLDRSLLVFFKLREK---NLFCWNSIIEGL----AVH---  120 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~---~~~~~~~li~~~----~~~---  120 (331)
                      .....++|+...+.++..+ +-+..+|+.-..++...|  +++++++.++.+...   +..+|+.-...+    ...   
T Consensus        45 ~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           45 AEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             cCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhcccc
Confidence            3344579999999999986 446778888888888888  999999999988753   445666655555    455   


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH--HHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC-----
Q 043124          121 GFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE--EGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL-----  193 (331)
Q Consensus       121 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----  193 (331)
                      ++++++++.++++.+.+ +-+...++.-...+.+.|.++  +++..++++.+..  +-+-..|+.-...+.+.+.     
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccchhh
Confidence            78999999999999875 557778877777777788887  9999999999543  4566777776666666666     


Q ss_pred             -HHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCC-HHHHHHHHHHHHhcC---CCCcchHHHHHHHHHhcCCchHHHHH
Q 043124          194 -LEDALELIRSS-KFQP-NAVIWGALLGGCKLHRN-LEIAHIAVNELMILE---PNNSGYCTLLLNMYAEVSRWAEVTKI  266 (331)
Q Consensus       194 -~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~  266 (331)
                       ++++++.+++. ...| |...|+.+-..+.+.|+ .+.+..+..++...+   |.++.+...++.+|.+.|+.++|.++
T Consensus       201 ~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          201 TIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence             88888888763 3445 67788877777877777 444667877777765   77888889999999999999999999


Q ss_pred             HHHHHh
Q 043124          267 RVAMKE  272 (331)
Q Consensus       267 ~~~m~~  272 (331)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999875

>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=99.03  E-value=1.6e-08  Score=78.51  Aligned_cols=128  Identities=9%  Similarity=-0.079  Sum_probs=86.0

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .+..+...+...|++++|...|++..    .|+...+..+...+...|++++|...|++..+..  +.+...+..+..+|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHH
Confidence            45566667777777777777777662    4566677777777777777777777777776332  33456677777777


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-----------------cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          189 SKAGLLEDALELIRSS-KFQP-----------------NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~-~~~p-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      ...|++++|++.+++. ...|                 ....+..+..++...|++++|...++++++..|+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            7777777777777652 1112                 1255666666677777777777777777777665

>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=99.01  E-value=1.1e-08  Score=84.44  Aligned_cols=196  Identities=9%  Similarity=-0.041  Sum_probs=121.1

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCC---CC--chhHHHHHHHHHHhhCCHH
Q 043124           19 NKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGF---DI--DVYIGSALVDMYAKCGSLD   93 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~g~~~   93 (331)
                      .+++++|...|.+.               ...|...|++++|...+.++.+...   .+  -..+++.+..+|.+.|+++
T Consensus        29 ~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~   93 (307)
T 2ifu_A           29 KPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMP   93 (307)
T ss_dssp             SCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             CCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHH
Confidence            45666666666654               3456667777777777776655311   01  1346677777777777777


Q ss_pred             HHHHHHhhcCC-------C--ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCC---CC--cHHHHHHHHHHHhccCcHH
Q 043124           94 RSLLVFFKLRE-------K--NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENV---EP--NGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        94 ~a~~~~~~~~~-------~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p--~~~~~~~ll~~~~~~~~~~  159 (331)
                      +|...|++..+       +  -..+++.+...|.. |++++|+..|++..+...   .+  ...++..+...+...|+++
T Consensus        94 ~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  172 (307)
T 2ifu_A           94 EAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFD  172 (307)
T ss_dssp             GGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHH
Confidence            77776665432       1  12467777777777 888888888887765311   01  1356677778888888888


Q ss_pred             HHHHHHHhhhhc---CCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcH------HHHHHHHHHHhhcCCHHHH
Q 043124          160 EGRRRFLSMTCG---YSITPE-VEHYGCMVDLLSKAGLLEDALELIRSSKFQPNA------VIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       160 ~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~------~~~~~l~~~~~~~~~~~~a  229 (331)
                      +|+..|++..+.   .+..+. ...+..+..++...|++++|...|++.-..|+.      .....++.++ ..++.+.+
T Consensus       173 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~  251 (307)
T 2ifu_A          173 EAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSIPGFSGSEDCAALEDLLQAY-DEQDEEQL  251 (307)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTSTTSHHHHHHHHHHHHH-HTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHH-HhcCHHHH
Confidence            888888876632   121222 235666667777778888888888763244421      2233444444 56776666


Q ss_pred             HH
Q 043124          230 HI  231 (331)
Q Consensus       230 ~~  231 (331)
                      ..
T Consensus       252 ~~  253 (307)
T 2ifu_A          252 LR  253 (307)
T ss_dssp             HH
T ss_pred             HH
Confidence            55

>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=98.99  E-value=2.1e-09  Score=87.65  Aligned_cols=51  Identities=8%  Similarity=-0.082  Sum_probs=37.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc-CCchHHHHHHHHHHhc
Q 043124          223 HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV-SRWAEVTKIRVAMKEL  273 (331)
Q Consensus       223 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  273 (331)
                      .|+.++|.+.++++++.+|++......+...+.+. +.+++|..+|++..+.
T Consensus       148 ~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          148 AAERERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            57888888888888888887666656666656555 6677888888877654

>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=98.98  E-value=5.3e-09  Score=76.43  Aligned_cols=97  Identities=11%  Similarity=0.065  Sum_probs=74.1

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                      +...+..+...+...|++++|+..|++. ...| +...|..+..++...|++++|...+++++...|+++..+..++.+|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3555666777778888888888888763 2334 5667777777788888888888888888888888888888888888


Q ss_pred             HhcCCchHHHHHHHHHHhc
Q 043124          255 AEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       255 ~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...|++++|...|++..+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8888888888888887653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.98  E-value=3.1e-08  Score=81.15  Aligned_cols=164  Identities=7%  Similarity=-0.094  Sum_probs=114.4

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH-----HHHHHHHHHHhccCcHHHHHHHHHhhhhcCC--CCCc--Hh
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG-----VTFISVLSACTHAGLVEEGRRRFLSMTCGYS--ITPE--VE  179 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~--~~  179 (331)
                      .+...+..+...|++++|.+.+++..+.......     ..+..+...+...|++++|...+++..+...  ..+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444566777888888888888877765322111     2233455566778889999998888763211  1111  44


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC--cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC------Cc
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS-------KFQP--NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN------NS  244 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~  244 (331)
                      +++.+...|...|++++|+..+++.       +..+  ...++..+...|...|++++|...++++++..+.      ..
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888888899999999998888753       1112  1257788888899999999999999999874321      14


Q ss_pred             chHHHHHHHHHhcCCchHH-HHHHHHHHh
Q 043124          245 GYCTLLLNMYAEVSRWAEV-TKIRVAMKE  272 (331)
Q Consensus       245 ~~~~~l~~~~~~~g~~~~a-~~~~~~m~~  272 (331)
                      .+|..++.+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            5678889999999999999 777777653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.95  E-value=1.1e-08  Score=74.77  Aligned_cols=101  Identities=10%  Similarity=-0.036  Sum_probs=83.4

Q ss_pred             CCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 043124          174 ITPE-VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLL  250 (331)
Q Consensus       174 ~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  250 (331)
                      +.|+ ...+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|...|+++++++|+++..|..+
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~l  110 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHT  110 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHH
Confidence            3443 556777788888899999999988864 3445 577788888888999999999999999999999999999999


Q ss_pred             HHHHHhcCCchHHHHHHHHHHhcC
Q 043124          251 LNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       251 ~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      +.+|.+.|++++|...|++..+..
T Consensus       111 g~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          111 GQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999888653

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.94  E-value=3.2e-07  Score=75.09  Aligned_cols=202  Identities=7%  Similarity=-0.049  Sum_probs=139.6

Q ss_pred             HHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchh---HHHHHHHHHHhhCCHHHHHHHHhhcCC
Q 043124           28 AFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVY---IGSALVDMYAKCGSLDRSLLVFFKLRE  104 (331)
Q Consensus        28 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~  104 (331)
                      .+.++......|+..+...+...+.-.  ++   .++    ......+..   .+...+..+...|++++|.+.+++..+
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~--~~---~~~----~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIP--II---HFY----EVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCC--TH---HHH----HTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcC--HH---HHh----CCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            444555444567777766666655321  11   111    111122222   233346778899999999999988754


Q ss_pred             C---Ch------hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-Cc----HHHHHHHHHHHhccCcHHHHHHHHHhhhh
Q 043124          105 K---NL------FCWNSIIEGLAVHGFAHEALAMFDRMIYENVE-PN----GVTFISVLSACTHAGLVEEGRRRFLSMTC  170 (331)
Q Consensus       105 ~---~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  170 (331)
                      .   +.      ..+..+...+...|++++|+..|++..+.... ++    ..+++.+...|...|++++|...|+++.+
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2   11      13445777788888999999999999874322 22    33688899999999999999999999873


Q ss_pred             c---C-CCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc-HHHHHHHHHHHhhcC-CHHHHHHHHHHH
Q 043124          171 G---Y-SITPE-VEHYGCMVDLLSKAGLLEDALELIRSS-------KFQPN-AVIWGALLGGCKLHR-NLEIAHIAVNEL  236 (331)
Q Consensus       171 ~---~-~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p~-~~~~~~l~~~~~~~~-~~~~a~~~~~~~  236 (331)
                      .   . +..+. ..++..+...|.+.|++++|+..+++.       +..+. ..++..+..++...| ++++|.+.++++
T Consensus       184 ~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          184 QLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            1   1 11222 447888999999999999999988752       22222 667888888899999 579999999999


Q ss_pred             Hh
Q 043124          237 MI  238 (331)
Q Consensus       237 ~~  238 (331)
                      +.
T Consensus       264 l~  265 (293)
T 3u3w_A          264 SF  265 (293)
T ss_dssp             HH
T ss_pred             HH
Confidence            87

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.92  E-value=3e-08  Score=70.17  Aligned_cols=109  Identities=12%  Similarity=-0.005  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHH
Q 043124          143 VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGC  220 (331)
Q Consensus       143 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~  220 (331)
                      ..+......+.+.|++++|+..|++..+..  +.+...|..+..+|.+.|++++|+..+++. .+.| +...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            455566777777788888888887776332  335667777778888888888888887763 3344 467788888889


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      ...|++++|.+.|+++++++|++..++..|..+
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            999999999999999999999988887666543

>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=98.92  E-value=4.1e-08  Score=72.74  Aligned_cols=127  Identities=7%  Similarity=-0.061  Sum_probs=88.8

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHh
Q 043124          144 TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCK  221 (331)
Q Consensus       144 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~  221 (331)
                      .+..+...+...|++++|...|++.....  +.+...+..+...+...|++++|...+++. ...| +...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            34455556666677777777777666322  234566666777777777777777777653 2233 4667777888888


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcchHHHHH--HHHHhcCCchHHHHHHHHHHh
Q 043124          222 LHRNLEIAHIAVNELMILEPNNSGYCTLLL--NMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~--~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ..|++++|...++++++..|.+...+..+.  ..+.+.|++++|...++...+
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            889999999999999988888777764444  447788999999988887654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.91  E-value=1.3e-07  Score=75.80  Aligned_cols=192  Identities=8%  Similarity=-0.111  Sum_probs=116.0

Q ss_pred             ccCCchHHHHHHHHHHHhCCCCchhHHHHH-------HHHHHhhCCHHHHHHHHhhcCCC---------C----------
Q 043124           53 HLGALDLGREIHLYVMQIGFDIDVYIGSAL-------VDMYAKCGSLDRSLLVFFKLREK---------N----------  106 (331)
Q Consensus        53 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~a~~~~~~~~~~---------~----------  106 (331)
                      ..++...|.+.|.++.+.. +-....|..+       ...+.+.++..++...+..-.+-         +          
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            4567777777777777664 3345556555       34454444444554444433321         1          


Q ss_pred             -----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc--Hh
Q 043124          107 -----LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE--VE  179 (331)
Q Consensus       107 -----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  179 (331)
                           ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+... ... .|.  ..
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~-~~~-d~~~~~~  172 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAG-KWP-DKFLAGA  172 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGG-GCS-CHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhh-ccC-CcccHHH
Confidence                 1123345566777777777777777776543  433344445556777788888888887655 211 111  23


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCC--CC-Cc--HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSSK--FQ-PN--AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLL  250 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~~--~~-p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  250 (331)
                      .+..+..++...|++++|+..|++..  -. |.  .........++.+.|+.++|...|+++...+|+ ...+..|
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence            55566777778888888888887642  11 32  234555666677888888888888888888887 5554444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.91  E-value=3.2e-08  Score=70.25  Aligned_cols=94  Identities=12%  Similarity=0.046  Sum_probs=49.9

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      ...+..+...+...|++++|...+++. ...| +...+..+..++...|++++|...++++++..|++...+..++.++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~   95 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            444444555555555555555555542 2222 34445555555555555555555555555555555555555555555


Q ss_pred             hcCCchHHHHHHHHHH
Q 043124          256 EVSRWAEVTKIRVAMK  271 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~  271 (331)
                      +.|++++|...+++..
T Consensus        96 ~~~~~~~A~~~~~~~~  111 (133)
T 2lni_A           96 AMKDYTKAMDVYQKAL  111 (133)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            5555555555555554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.89  E-value=1e-07  Score=78.06  Aligned_cols=164  Identities=10%  Similarity=-0.035  Sum_probs=117.1

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc-----hhHHHHHHHHHHhhCCHHHHHHHHhhcCC-----CC---
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID-----VYIGSALVDMYAKCGSLDRSLLVFFKLRE-----KN---  106 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~---  106 (331)
                      ....+...+..+...|++++|.+.+++.++......     ...+..+...+...|++++|...|++..+     .+   
T Consensus        74 ~~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            345666677788888999999999888877532211     12344566777888899999998876542     11   


Q ss_pred             -hhhHHHHHHHHHhCCCHHHHHHHHHHHHH---cC-CCC--cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC---CCCC
Q 043124          107 -LFCWNSIIEGLAVHGFAHEALAMFDRMIY---EN-VEP--NGVTFISVLSACTHAGLVEEGRRRFLSMTCGY---SITP  176 (331)
Q Consensus       107 -~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~-~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~  176 (331)
                       ..+|+.+...|...|++++|...|++..+   .. ..+  ...++..+...|...|++++|...+++..+..   +...
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             34788889999999999999999988873   21 111  12577788889999999999999998876321   1111


Q ss_pred             -cHhHHHHHHHHHHHcCCHHHH-HHHHHh
Q 043124          177 -EVEHYGCMVDLLSKAGLLEDA-LELIRS  203 (331)
Q Consensus       177 -~~~~~~~l~~~~~~~~~~~~a-~~~~~~  203 (331)
                       -..+|..+..+|.+.|++++| ...+++
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence             156788888899999999988 665654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.89  E-value=3.6e-08  Score=69.63  Aligned_cols=118  Identities=11%  Similarity=-0.006  Sum_probs=86.2

Q ss_pred             cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHH
Q 043124          141 NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLG  218 (331)
Q Consensus       141 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~  218 (331)
                      +...+..+...+...|++++|...|++.....  +.+...+..+...+...|++++|.+.+++. ...| +...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHH
Confidence            34555566666777777777777777766332  334566777777777778888887777653 2233 4667777788


Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCc
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRW  260 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  260 (331)
                      .+...|++++|...++++++..|++...+..+..++.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            888899999999999999998888888888888888888775

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.88  E-value=6.4e-08  Score=67.70  Aligned_cols=115  Identities=17%  Similarity=0.116  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-C-CCcHHHHHHHHHH
Q 043124          142 GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-F-QPNAVIWGALLGG  219 (331)
Q Consensus       142 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~-~p~~~~~~~l~~~  219 (331)
                      ...+..+...+...|++++|...++++.+..  +.+...+..+...+...|++++|...+++.- . ..+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            3455556666666666777766666666322  2345566666666777777777777666531 2 2345667777777


Q ss_pred             HhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          220 CKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      +...|++++|...++++....|++...+..+..++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            888888888888888888888887777777766665543

>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=98.87  E-value=2.3e-08  Score=81.45  Aligned_cols=189  Identities=11%  Similarity=-0.062  Sum_probs=111.4

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHH
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEG  116 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~  116 (331)
                      +...+..+...+...|++++|+..++++++.. +.+...+..+..+|.+.|++++|...+++..+.   +...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            44566667777777777777777777777764 336677777777888888888888887776642   45677778888


Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcH-HHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNG-VTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLE  195 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  195 (331)
                      +...|++++|...|++..+.+  |+. ..+...+....+...   +... .... ......+......+...  ..|+.+
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~~~---~~~~-~~~~-~~~~~~~~~i~~~l~~l--~~~~~~  152 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRIAK---KKRW-NSIE-ERRIHQESELHSYLTRL--IAAERE  152 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHHHH---HHHH-HHHH-HTCCCCCCHHHHHHHHH--HHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHHHH---HHHH-HHHH-HHHHhhhHHHHHHHHHH--HHHHHH
Confidence            888888888888888776642  211 011111111111111   1111 1111 12223444444433322  367888


Q ss_pred             HHHHHHHh-CCCCCcHHHHHHHHHH-Hhhc-CCHHHHHHHHHHHHh
Q 043124          196 DALELIRS-SKFQPNAVIWGALLGG-CKLH-RNLEIAHIAVNELMI  238 (331)
Q Consensus       196 ~a~~~~~~-~~~~p~~~~~~~l~~~-~~~~-~~~~~a~~~~~~~~~  238 (331)
                      +|++.+++ ....|+......-+.. +... +.+++|.++|+++.+
T Consensus       153 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            88888765 3456654433333333 4443 567888888888765

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.87  E-value=5.6e-08  Score=68.98  Aligned_cols=118  Identities=8%  Similarity=0.002  Sum_probs=82.3

Q ss_pred             CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHH
Q 043124          140 PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALL  217 (331)
Q Consensus       140 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~  217 (331)
                      .+...+..+...+...|++++|...|++..+..  +.+...+..+...+...|++++|+..+++. ...| +...+..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN--PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            345556666666777777777777777766221  234566666677777777777777777653 2223 466777777


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCC
Q 043124          218 GGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSR  259 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  259 (331)
                      .++...|++++|.+.++++++..|.+...+..+..++...|+
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            788888888888888888888888888887778877776653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.86  E-value=2.8e-08  Score=73.81  Aligned_cols=106  Identities=13%  Similarity=-0.040  Sum_probs=76.1

Q ss_pred             cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHH
Q 043124          141 NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLG  218 (331)
Q Consensus       141 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~  218 (331)
                      +...+..+...+...|++++|+..|++..+..  +.+...|..+..+|...|++++|+..+++. ...| +...+..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            45566677777788888888888888877332  335667777777788888888888877753 2334 3667777777


Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCcchHH
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNSGYCT  248 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  248 (331)
                      ++...|++++|...+++++++.|++...+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  117 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAM  117 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHH
Confidence            778888888888888888887777776543

>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=98.86  E-value=3.8e-08  Score=69.49  Aligned_cols=96  Identities=13%  Similarity=-0.022  Sum_probs=76.5

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      ...+..+...+.+.|++++|+..|++. ...| +...+..+..++...|++++|...++++++.+|++...|..++.++.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            345666777788888888888888763 2334 46777888888888888888888888888888888888888888888


Q ss_pred             hcCCchHHHHHHHHHHhc
Q 043124          256 EVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~~~  273 (331)
                      ..|++++|...+++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            889988888888888754

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.84  E-value=1.2e-07  Score=66.24  Aligned_cols=94  Identities=15%  Similarity=0.199  Sum_probs=47.0

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDM   85 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   85 (331)
                      ...|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            3445555555555555555555555555442 2234445555555555555555555555555442 2233444444444


Q ss_pred             HHhhCCHHHHHHHHhh
Q 043124           86 YAKCGSLDRSLLVFFK  101 (331)
Q Consensus        86 ~~~~g~~~~a~~~~~~  101 (331)
                      +...|++++|...|++
T Consensus        87 ~~~~~~~~~A~~~~~~  102 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQK  102 (125)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHH
Confidence            4444444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.84  E-value=9.3e-08  Score=67.44  Aligned_cols=117  Identities=17%  Similarity=0.143  Sum_probs=100.4

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                      +...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++++..|++...+..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4567788888999999999999999874 2334 6778888888999999999999999999999999999999999999


Q ss_pred             HhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          255 AEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       255 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      ...|++++|...+++..+.                           .|+++..+..++.++..+++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~---------------------------~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL---------------------------DPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---------------------------STTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhc---------------------------CccchHHHHHHHHHHHHHhc
Confidence            9999999999999998753                           36667788888888876654

>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=98.84  E-value=1.2e-08  Score=76.80  Aligned_cols=122  Identities=11%  Similarity=0.035  Sum_probs=54.4

Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH-HHHcCCH--H
Q 043124          119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL-LSKAGLL--E  195 (331)
Q Consensus       119 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  195 (331)
                      ..|++++|...+++..+.. +.+...+..+...+...|++++|...|++..+..  +.+...+..+..+ +...|++  +
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcchH
Confidence            3455555555555555442 3344455555555555555555555555554221  1233344444444 4444544  5


Q ss_pred             HHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC
Q 043124          196 DALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN  243 (331)
Q Consensus       196 ~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  243 (331)
                      +|...+++. ...| +...+..+...+...|++++|...++++++..|++
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            555444432 1222 23344444444445555555555555555544444

>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=4.7e-08  Score=71.44  Aligned_cols=123  Identities=8%  Similarity=-0.011  Sum_probs=98.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCC-CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISP-DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYA   87 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (331)
                      ...+...+...+.+.+++.         +.| +...+..+...+.+.|++++|+..|+++++.. +.+...|..+..+|.
T Consensus        12 ~~~l~~~~~~~~~l~~al~---------l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~   81 (151)
T 3gyz_A           12 STAVIDAINSGATLKDINA---------IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQ   81 (151)
T ss_dssp             HHHHHHHHHTSCCTGGGCC---------SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHhC---------CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            4556666666655555532         233 44577788889999999999999999999985 457889999999999


Q ss_pred             hhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHH
Q 043124           88 KCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGV  143 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  143 (331)
                      ..|++++|...|++..+   .++..|..+..+|...|++++|...|++..+..  |+..
T Consensus        82 ~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~--~~~~  138 (151)
T 3gyz_A           82 IKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHS--NDEK  138 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHH
T ss_pred             HHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCHH
Confidence            99999999999998763   367789999999999999999999999999864  5543

>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=98.84  E-value=6.4e-06  Score=68.22  Aligned_cols=238  Identities=8%  Similarity=-0.032  Sum_probs=160.7

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC-CchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG-ALDLGREIHLYVMQIGFDIDVYIGSALVDMYA   87 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (331)
                      ++.+-....+.+..++|+++++++...+. -+..+|+.-..++...| ++++++.+++.++... +-+..+|+.-..++.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~nP-~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~  134 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMNP-AHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444444555666789999999998753 35667777777777777 5999999999999875 447778888877777


Q ss_pred             hh-C-CHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHH--------HHHHHHHHHHHcCCCCcHHHHHHHHHHHhc
Q 043124           88 KC-G-SLDRSLLVFFKLREKN---LFCWNSIIEGLAVHGFAH--------EALAMFDRMIYENVEPNGVTFISVLSACTH  154 (331)
Q Consensus        88 ~~-g-~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  154 (331)
                      +. + ++++++++++.+.+.+   ..+|+.-.-.+.+.|.++        ++++.++++.+.+ +-|...|+.....+.+
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~  213 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVS  213 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTT
T ss_pred             HhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            77 7 8899999999988754   456666555555555555        8999999998875 4577778777777777


Q ss_pred             cCc-------HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCH--------------------HHHHHHHHhCC-C
Q 043124          155 AGL-------VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLL--------------------EDALELIRSSK-F  206 (331)
Q Consensus       155 ~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~-~  206 (331)
                      .+.       +++++..+++.....  +-|...|+-+-..+.+.|+.                    ....++..++. .
T Consensus       214 l~~~~~~~~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  291 (349)
T 3q7a_A          214 RPGAETSSRSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSD  291 (349)
T ss_dssp             STTCCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-
T ss_pred             ccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhc
Confidence            665       678888888877332  44677777766666666654                    22222222221 1


Q ss_pred             -------CCcHHHHHHHHHHHhhcCCHHHHHHHHHHHH-hcCCCCcchHHHHH
Q 043124          207 -------QPNAVIWGALLGGCKLHRNLEIAHIAVNELM-ILEPNNSGYCTLLL  251 (331)
Q Consensus       207 -------~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~p~~~~~~~~l~  251 (331)
                             .++......++..|...|+.++|.++++.+. +.+|-...+|...+
T Consensus       292 ~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          292 PLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             ccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence                   2455566666667777777777777777775 35666555554443

>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=98.83  E-value=1.5e-07  Score=69.59  Aligned_cols=124  Identities=7%  Similarity=-0.057  Sum_probs=61.9

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhC
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVH  120 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~  120 (331)
                      +..+...+...|+++.|...+++..+.. +.+..++..+..++...|++++|...|++..+   .+..+|..+..++...
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~   94 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   94 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHh
Confidence            4444444445555555555555554442 22344445555555555555555555544332   2334555555566666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHHHHH--HHHHHHhccCcHHHHHHHHHhhh
Q 043124          121 GFAHEALAMFDRMIYENVEPNGVTFI--SVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       121 ~~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      |++++|...|++..+.. +.+...+.  ..+..+...|++++|...+....
T Consensus        95 ~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           95 GKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            66666666666665543 22333332  22223455566666666665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.81  E-value=7.2e-08  Score=69.72  Aligned_cols=96  Identities=11%  Similarity=0.002  Sum_probs=72.8

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|...+++++..+|+++..+..++.+|.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            445556667777888888888887763 2334 56667777777888888888888888888888888888888888888


Q ss_pred             hcCCchHHHHHHHHHHhc
Q 043124          256 EVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~~~  273 (331)
                      ..|++++|...+++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            888888888888877653

>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=98.81  E-value=6.6e-08  Score=80.84  Aligned_cols=130  Identities=12%  Similarity=0.045  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC-------------cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 043124          142 GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP-------------EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQ  207 (331)
Q Consensus       142 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~  207 (331)
                      ...+..+...+.+.|++++|...|++..+...-.+             ....|..+..+|.+.|++++|+..+++. ...
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            34445555555566666666666665552211000             1467888889999999999999998863 334


Q ss_pred             C-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHH-HHHHHHHH
Q 043124          208 P-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEV-TKIRVAMK  271 (331)
Q Consensus       208 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  271 (331)
                      | +...+..+..++...|++++|...|++++++.|++...+..+..++.+.|++++| ..+++.|.
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 5788888999999999999999999999999999999999999999999999988 45666664

>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=98.80  E-value=2.5e-07  Score=63.94  Aligned_cols=93  Identities=14%  Similarity=0.100  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 043124          179 EHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE  256 (331)
Q Consensus       179 ~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  256 (331)
                      ..+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++++..|++...+..++.++..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34444555555666666666655542 1222 345555555556666666666666666666666666666666666666


Q ss_pred             cCCchHHHHHHHHHH
Q 043124          257 VSRWAEVTKIRVAMK  271 (331)
Q Consensus       257 ~g~~~~a~~~~~~m~  271 (331)
                      .|++++|...+++..
T Consensus        85 ~~~~~~A~~~~~~~~   99 (118)
T 1elw_A           85 LNRFEEAKRTYEEGL   99 (118)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHH
Confidence            666666666666654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.79  E-value=1.7e-07  Score=75.07  Aligned_cols=182  Identities=9%  Similarity=-0.070  Sum_probs=137.5

Q ss_pred             hhCCHHHHHHHHhhcCCC---ChhhHHHH-------HHHHHhCCCHHHHHHHHHHHHHcCCCCc----------------
Q 043124           88 KCGSLDRSLLVFFKLREK---NLFCWNSI-------IEGLAVHGFAHEALAMFDRMIYENVEPN----------------  141 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~~---~~~~~~~l-------i~~~~~~~~~~~a~~~~~~m~~~~~~p~----------------  141 (331)
                      ..++.+.|.+.|.+..+-   ....|..+       ...+.+.++..+++..+..-.+.  .|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCcccccc
Confidence            579999999999988753   44678777       46666666666776666665541  111                


Q ss_pred             ------HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCc----HH
Q 043124          142 ------GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPN----AV  211 (331)
Q Consensus       142 ------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~----~~  211 (331)
                            ..........+...|++++|..+|+.+. ..  .|+....-.+...+.+.+++++|+..|+.....|+    ..
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~-~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAP-VA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSC-CT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHH-hc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                  2233446677889999999999999998 32  45433555666788999999999999987653342    23


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcC--CC-CcchHHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILE--PN-NSGYCTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .+..+..++...|++++|++.|++.....  |. ..........++.+.|+.++|..+|+++....
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            67778888999999999999999998632  55 44566788999999999999999999998754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.78  E-value=1.1e-07  Score=73.07  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=9.0

Q ss_pred             HHHHHHhccCcHHHHHHHHHh
Q 043124          147 SVLSACTHAGLVEEGRRRFLS  167 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~  167 (331)
                      .+...+...|++++|...+++
T Consensus       112 ~lg~~~~~~g~~~~A~~~~~~  132 (203)
T 3gw4_A          112 EVATVALHFGDLAGARQEYEK  132 (203)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHH
Confidence            333444444444444444444

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.78  E-value=5.2e-07  Score=82.00  Aligned_cols=216  Identities=8%  Similarity=-0.078  Sum_probs=162.1

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHH-HHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043124           59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSL-LVFFKLRE--K-NLFCWNSIIEGLAVHGFAHEALAMFDRMI  134 (331)
Q Consensus        59 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  134 (331)
                      .+..+|++++.. ++-...+|-..+..+.+.|+.++|. ++|++...  | +...|...+...-+.|++++|.++|+++.
T Consensus       327 Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          327 RMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            456678888776 4557888888899899999999996 99987764  2 45567788888899999999999999998


Q ss_pred             HcC---------CCCc------------HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc-C
Q 043124          135 YEN---------VEPN------------GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA-G  192 (331)
Q Consensus       135 ~~~---------~~p~------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~  192 (331)
                      +..         ..|+            ...|...+....+.|+.+.|..+|....+..+ ......|...+..-.+. +
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~  484 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCC
Confidence            641         0131            33577777888888999999999999984311 12233444333333344 4


Q ss_pred             CHHHHHHHHHhC-C-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC---CcchHHHHHHHHHhcCCchHHHHHH
Q 043124          193 LLEDALELIRSS-K-FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN---NSGYCTLLLNMYAEVSRWAEVTKIR  267 (331)
Q Consensus       193 ~~~~a~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~  267 (331)
                      +.+.|..+|+.. . +.-+...+...+......|+.+.|..+|++++...|+   ....|...+..-.+.|+.+.+..+.
T Consensus       485 d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~  564 (679)
T 4e6h_A          485 DTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLE  564 (679)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            599999999863 2 2234566677787788899999999999999997763   4566777888888899999999999


Q ss_pred             HHHHhcCCC
Q 043124          268 VAMKELGIE  276 (331)
Q Consensus       268 ~~m~~~~~~  276 (331)
                      +++.+.-..
T Consensus       565 ~R~~~~~P~  573 (679)
T 4e6h_A          565 KRFFEKFPE  573 (679)
T ss_dssp             HHHHHHSTT
T ss_pred             HHHHHhCCC
Confidence            999876543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.77  E-value=6.6e-08  Score=74.23  Aligned_cols=151  Identities=15%  Similarity=-0.046  Sum_probs=84.6

Q ss_pred             hhCCHHHHHH---HHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCC-CcHHHHHHHHHHHhccCcHH
Q 043124           88 KCGSLDRSLL---VFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NVE-PNGVTFISVLSACTHAGLVE  159 (331)
Q Consensus        88 ~~g~~~~a~~---~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~~~~~ll~~~~~~~~~~  159 (331)
                      ..|++++|.+   .+..-......++..+...+...|++++|...+++..+.    +.+ .....+..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4566666666   443322223456666666667777777777777666541    111 22345556666777777777


Q ss_pred             HHHHHHHhhhhc---CCCCC--cHhHHHHHHHHHHHcCCHHHHHHHHHhCC------CCCc--HHHHHHHHHHHhhcCCH
Q 043124          160 EGRRRFLSMTCG---YSITP--EVEHYGCMVDLLSKAGLLEDALELIRSSK------FQPN--AVIWGALLGGCKLHRNL  226 (331)
Q Consensus       160 ~a~~~~~~~~~~---~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~p~--~~~~~~l~~~~~~~~~~  226 (331)
                      +|...+++....   .+-.+  ....+..+...+...|++++|...+++.-      -.+.  ..++..+...+...|++
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            777777765532   11111  13445666667777777777777665421      0111  22345555566677777


Q ss_pred             HHHHHHHHHHHh
Q 043124          227 EIAHIAVNELMI  238 (331)
Q Consensus       227 ~~a~~~~~~~~~  238 (331)
                      ++|.+.++++++
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777777665

>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=3.3e-08  Score=72.14  Aligned_cols=115  Identities=9%  Similarity=-0.070  Sum_probs=80.9

Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 043124          129 MFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQ  207 (331)
Q Consensus       129 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~  207 (331)
                      .|+++.+.. +.+...+..+...+...|++++|...|+......  +.+...|..+..+|...|++++|+..|++. ...
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            344444432 2234555666777778888888888888877332  335667777778888888888888888763 233


Q ss_pred             C-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          208 P-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       208 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      | +...+..+..++...|++++|...++++++..|+++..
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~  125 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEF  125 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGG
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcc
Confidence            4 45667777788888888888888888888888876655

>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=98.77  E-value=8e-09  Score=79.42  Aligned_cols=171  Identities=11%  Similarity=-0.057  Sum_probs=97.8

Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLV  158 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  158 (331)
                      .+.+....|+++++.+.++.-.+.   ....+..+...+...|++++|...|++..+..  |+...+...        ..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~--------~~   79 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQ--------IL   79 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCH--------HH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchh--------hH
Confidence            334444455566555555433221   23456666666777777777777777766542  110000000        00


Q ss_pred             HHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 043124          159 EEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNEL  236 (331)
Q Consensus       159 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  236 (331)
                      +.-.   ..        .....+..+..+|...|++++|+..+++. ...| +...+..+..++...|++++|...++++
T Consensus        80 ~~~~---~~--------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A           80 LDKK---KN--------IEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             HHHH---HH--------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHH---HH--------HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            0000   00        01356777788888888898888888763 2334 5778888888899999999999999999


Q ss_pred             HhcCCCCcchHHHHHHHHHhcCCchHHH-HHHHHHHhc
Q 043124          237 MILEPNNSGYCTLLLNMYAEVSRWAEVT-KIRVAMKEL  273 (331)
Q Consensus       237 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~  273 (331)
                      ++..|++...+..+..++...++.+++. ..++.|...
T Consensus       149 l~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          149 ASLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999898999998888887776 566666543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=2.7e-07  Score=66.73  Aligned_cols=94  Identities=12%  Similarity=-0.007  Sum_probs=48.7

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN----AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      ...+..+...+...|++++|...+++. ...|+    ...+..+..++...|++++|...+++++...|++...+..+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            334444444555555555555555442 23343    3444444445555555555555555555555555555555555


Q ss_pred             HHHhcCCchHHHHHHHHHH
Q 043124          253 MYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       253 ~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++...|++++|...+++..
T Consensus       108 ~~~~~~~~~~A~~~~~~al  126 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCV  126 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHH
Confidence            5555555555555555554

>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=98.74  E-value=1.2e-07  Score=71.24  Aligned_cols=112  Identities=11%  Similarity=0.016  Sum_probs=48.4

Q ss_pred             hCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH-HhccCcH--HHHH
Q 043124           89 CGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA-CTHAGLV--EEGR  162 (331)
Q Consensus        89 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~--~~a~  162 (331)
                      .|++++|...+++..+   .+...|..+...+...|++++|...|++..+.+ +.+...+..+... +...|++  ++|.
T Consensus        23 ~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHH
Confidence            3444444444443321   233445555555555555555555555544432 2233344444444 3444444  5555


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                      ..|+...+..  +.+...+..+...|...|++++|...+++
T Consensus       102 ~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~  140 (177)
T 2e2e_A          102 AMIDKALALD--SNEITALMLLASDAFMQANYAQAIELWQK  140 (177)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCcHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            5555544221  12234444444455555555555555443

>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=3.3e-08  Score=75.94  Aligned_cols=140  Identities=11%  Similarity=-0.040  Sum_probs=98.0

Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-----------------HHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-----------------AVIW  213 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-----------------~~~~  213 (331)
                      ....|+++.+...|+.-....  ......+..+...+...|++++|+..|++. ...|+                 ...+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEK--VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             --------CCCSGGGCCHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHH--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            334455555555554333110  112344555666677777777777777652 11121                 2677


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEE
Q 043124          214 GALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQ  293 (331)
Q Consensus       214 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~  293 (331)
                      ..+..++...|++++|...+++++...|++...+..++.+|...|++++|...|++..+.                    
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--------------------  151 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--------------------  151 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--------------------
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--------------------
Confidence            888888999999999999999999999999999999999999999999999999998743                    


Q ss_pred             eecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          294 FAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       294 ~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                             +|++..++..+..++..+++
T Consensus       152 -------~p~~~~~~~~l~~~~~~~~~  171 (198)
T 2fbn_A          152 -------NPNNLDIRNSYELCVNKLKE  171 (198)
T ss_dssp             -------STTCHHHHHHHHHHHHHHHH
T ss_pred             -------CCCcHHHHHHHHHHHHHHHH
Confidence                   46777888888888877655

>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=98.71  E-value=2.6e-07  Score=77.21  Aligned_cols=129  Identities=9%  Similarity=-0.116  Sum_probs=94.6

Q ss_pred             CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCc--------------hhHHHHHHHHHHhhCCHHHHHHHHhhcCC-
Q 043124           40 DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDID--------------VYIGSALVDMYAKCGSLDRSLLVFFKLRE-  104 (331)
Q Consensus        40 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-  104 (331)
                      +...+..+...+...|++++|+..|+++++......              ..+|..+..+|.+.|++++|+..|++..+ 
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            455677777777777777777777777777642211              46778888888888888888888877653 


Q ss_pred             --CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH-HHHHHhhh
Q 043124          105 --KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG-RRRFLSMT  169 (331)
Q Consensus       105 --~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a-~~~~~~~~  169 (331)
                        .+..+|..+..+|...|++++|+..|++..+.. +.+...+..+..++...|+.++| ...|..|.
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              356678888888888888888888888888764 44566777777888888888877 44555554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.70  E-value=1.9e-07  Score=63.86  Aligned_cols=98  Identities=14%  Similarity=0.061  Sum_probs=78.3

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC--CcchHHHHHHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN--NSGYCTLLLNM  253 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  253 (331)
                      ...+..+...+...|++++|...+++. ...| +...+..+..++...|++++|...++++++..|.  +...+..+..+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            455666777788888888888888763 2223 5667777888888899999999999999988888  88888888999


Q ss_pred             HHhc-CCchHHHHHHHHHHhcCC
Q 043124          254 YAEV-SRWAEVTKIRVAMKELGI  275 (331)
Q Consensus       254 ~~~~-g~~~~a~~~~~~m~~~~~  275 (331)
                      +... |++++|.+.+++..+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999998876543

>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=98.70  E-value=1.4e-05  Score=65.93  Aligned_cols=243  Identities=12%  Similarity=0.063  Sum_probs=145.5

Q ss_pred             hhHHHHHHHH---HhCCChh-HHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCC----------chHHHHHHHHHHHhCC
Q 043124            7 ISWTTMITCY---SQNKQFR-EALDAFNEMKNSGISPDQVTMATVLSACAHLGA----------LDLGREIHLYVMQIGF   72 (331)
Q Consensus         7 ~~~~~li~~~---~~~~~~~-~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~   72 (331)
                      ..|..+...+   .+.|.+. +|+.+++.+...+. -+..+|+.--.++...+.          +++++.+++.++... 
T Consensus        27 ~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~nP-~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-  104 (331)
T 3dss_A           27 KLYQSATQAVFQKRQAGELDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-
Confidence            3455444433   3456655 78888888887642 244445543333333232          567788888888775 


Q ss_pred             CCchhHHHHHHHHHHhhC--CHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCcHHHHH
Q 043124           73 DIDVYIGSALVDMYAKCG--SLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGF-AHEALAMFDRMIYENVEPNGVTFI  146 (331)
Q Consensus        73 ~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~  146 (331)
                      +-+..+|+.-..++.+.|  .+++++++++.+.+   .|..+|+.-.-.+...|. ++++++.+.++.+.+ +-|...|+
T Consensus       105 PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~  183 (331)
T 3dss_A          105 PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWH  183 (331)
T ss_dssp             TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHH
T ss_pred             CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHH
Confidence            446777777777777777  47888888887764   355677777777777777 588888888888775 44666666


Q ss_pred             HHHHHHhcc--------------CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHc-----------CCHHHHHHHH
Q 043124          147 SVLSACTHA--------------GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKA-----------GLLEDALELI  201 (331)
Q Consensus       147 ~ll~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~  201 (331)
                      .....+.+.              +.+++++..+.......  +-|...|+-+-..+.+.           +.++++++.+
T Consensus       184 ~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~--P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~  261 (331)
T 3dss_A          184 YRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESC  261 (331)
T ss_dssp             HHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHH
Confidence            554444433              45677777777777332  44566665444444333           3455666666


Q ss_pred             HhC-CCCCcH-HHHHHHHH---HHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          202 RSS-KFQPNA-VIWGALLG---GCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       202 ~~~-~~~p~~-~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                      +++ ...||. ..+..++.   +.-..+..+++...+.++++++|.....|..+...+
T Consensus       262 ~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~  319 (331)
T 3dss_A          262 KELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKF  319 (331)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence            553 244542 12111111   112345666777777777777777666666554443

>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=98.68  E-value=4.2e-07  Score=64.30  Aligned_cols=99  Identities=8%  Similarity=-0.034  Sum_probs=48.4

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCC----------hhhHHHH
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKN----------LFCWNSI  113 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----------~~~~~~l  113 (331)
                      +..+...+.+.|++++|+..|+++++.. +.+..+|..+..+|.+.|++++|++.|++..+.+          ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3344444444444444444444444442 2233444444444444444444444444333210          1245556


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVTF  145 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  145 (331)
                      ..++...|++++|++.|++.++.  .|+....
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            66666777777777777776654  3454443

>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=98.68  E-value=7.9e-07  Score=61.28  Aligned_cols=108  Identities=15%  Similarity=0.056  Sum_probs=62.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHh
Q 043124          144 TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCK  221 (331)
Q Consensus       144 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~  221 (331)
                      .+..+...+...|++++|...|+......  +.+...+..+...+...|++++|...+++. ...| +...+..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            34445555555555666655555555221  223445555555566666666666665542 1223 3555666666677


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          222 LHRNLEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      ..|++++|.+.++++.+..|++...+..+..+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            77777777777777777777766655544443

>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=98.68  E-value=3.7e-06  Score=69.62  Aligned_cols=219  Identities=13%  Similarity=0.040  Sum_probs=155.9

Q ss_pred             HHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC-CHHHHHHHHhhcCCC---ChhhHHHHHHHHHhC-C-CH
Q 043124           50 ACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG-SLDRSLLVFFKLREK---NLFCWNSIIEGLAVH-G-FA  123 (331)
Q Consensus        50 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~-~-~~  123 (331)
                      .....+..++|+++++.++..+ +-+..+|+.-..++...| .+++++++++.+...   +..+|+.-...+.+. + ++
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCCh
Confidence            3345556678999999999986 446778888888888888 599999999988754   456777777777766 6 89


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHH--------HHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC--
Q 043124          124 HEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVE--------EGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL--  193 (331)
Q Consensus       124 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  193 (331)
                      +++++.++++.+.. +-+...++.-...+.+.|.++        +++..++++.+..  +-+...|+.....+.+.+.  
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTTSTTCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccc
Confidence            99999999999875 456777776555555555555        8999999988443  4567788887777777776  


Q ss_pred             -----HHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCH--------------------HHHHHHHHHHHhcC------
Q 043124          194 -----LEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNL--------------------EIAHIAVNELMILE------  240 (331)
Q Consensus       194 -----~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~------  240 (331)
                           ++++++.+++ +...| |...|+.+-..+.+.|+.                    ........++....      
T Consensus       219 ~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             cchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence                 6788888775 34455 566676665556555543                    23333333333322      


Q ss_pred             CCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          241 PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       241 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +.++.+...|+..|...|+.++|.++++.+.+
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            45566678899999999999999999999864

>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=98.68  E-value=4e-07  Score=65.03  Aligned_cols=98  Identities=13%  Similarity=-0.002  Sum_probs=74.5

Q ss_pred             CcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          176 PEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       176 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      .+...+..+...+...|++++|...|++. ...| +...+..+..++...|++++|...++++++..|++...+..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            34566777777777888888887777753 2333 466777777778888888888888888888888888888888888


Q ss_pred             HHhcCCchHHHHHHHHHHhc
Q 043124          254 YAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       254 ~~~~g~~~~a~~~~~~m~~~  273 (331)
                      |...|++++|...+++..+.
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHH
Confidence            88888888888888887754

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.66  E-value=2.4e-07  Score=68.52  Aligned_cols=85  Identities=12%  Similarity=0.020  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCC
Q 043124          210 AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMER  289 (331)
Q Consensus       210 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  289 (331)
                      ...|..+..++...|++++|...++++++++|++...|..++.+|...|++++|...|++..+.                
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l----------------  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN----------------  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc----------------
Confidence            4567777778888899999999999999888988888888899999999999999988887743                


Q ss_pred             EEEEeecCCCCCCCch-HHHHHHHHHHHHHHhc
Q 043124          290 KVYQFAASDKSHPASD-EIYSSLSKLDEQLKLA  321 (331)
Q Consensus       290 ~~~~~~~~~~~~p~~~-~~~~~l~~l~~~~~~~  321 (331)
                                 +|+++ .+...+..+...+++.
T Consensus       127 -----------~p~~~~~~~~~l~~~~~~~~~~  148 (162)
T 3rkv_A          127 -----------HPAAASVVAREMKIVTERRAEK  148 (162)
T ss_dssp             -----------CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             -----------CCCCHHHHHHHHHHHHHHHHHH
Confidence                       46666 5666777776666543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.65  E-value=4.2e-07  Score=65.64  Aligned_cols=94  Identities=12%  Similarity=-0.102  Sum_probs=63.8

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHH
Q 043124           42 VTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLA  118 (331)
Q Consensus        42 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~  118 (331)
                      ..+..+...+...|++++|+..|+.+.+.. +.+...|..+..+|.+.|++++|...|++..+   .+...+..+..++.
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            345555666667777777777777777664 34566666777777777777777777776542   24556677777777


Q ss_pred             hCCCHHHHHHHHHHHHHc
Q 043124          119 VHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       119 ~~~~~~~a~~~~~~m~~~  136 (331)
                      ..|++++|.+.|++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777777777777777654

>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=98.65  E-value=5.9e-07  Score=63.26  Aligned_cols=108  Identities=7%  Similarity=-0.054  Sum_probs=61.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHh
Q 043124          144 TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCK  221 (331)
Q Consensus       144 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~  221 (331)
                      .+..+...+.+.|++++|...|++..+..  +.+...|..+..++.+.|++++|+..+++. ...| +...+..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            34445555555666666666666555221  223455555666666666666666666542 2233 3556666666677


Q ss_pred             hcCCHHHHHHHHHHHHhcC------CCCcchHHHHHHH
Q 043124          222 LHRNLEIAHIAVNELMILE------PNNSGYCTLLLNM  253 (331)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~  253 (331)
                      ..|++++|...++++++..      |.+..+...+..+
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~  121 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  121 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHH
Confidence            7777777777777777766      6655554444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.65  E-value=1.6e-06  Score=74.95  Aligned_cols=191  Identities=9%  Similarity=-0.060  Sum_probs=99.6

Q ss_pred             HHHHHccCCchHHHHHHHHHHHhCCCCc----------------hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----C
Q 043124           48 LSACAHLGALDLGREIHLYVMQIGFDID----------------VYIGSALVDMYAKCGSLDRSLLVFFKLREK-----N  106 (331)
Q Consensus        48 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~  106 (331)
                      ...+.+.|++++|++.|..+++......                ...+..++..|...|++++|.+.+..+.+.     +
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3455677888888888887777532211                013555666677777777777666655421     1


Q ss_pred             ----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCCc-HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC-C--
Q 043124          107 ----LFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NVEPN-GVTFISVLSACTHAGLVEEGRRRFLSMTCGYS-I--  174 (331)
Q Consensus       107 ----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~--  174 (331)
                          ..+.+.+...+...|+++.|..++++....    +..+. ..++..+...+...|++++|..+++....... .  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence                112333334444556666666666655432    22222 33445556666666666666666665442111 0  


Q ss_pred             CC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCC-----C-CC-c--HHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          175 TP-EVEHYGCMVDLLSKAGLLEDALELIRSSK-----F-QP-N--AVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       175 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~-~p-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .+ ....+..++..|...|++++|...+++..     . .| .  ...+..+...+...+++++|...+.++.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            11 13455555666666666666666554321     1 11 1  12333334445555666666666655554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.64  E-value=1.1e-06  Score=63.40  Aligned_cols=111  Identities=10%  Similarity=-0.047  Sum_probs=77.6

Q ss_pred             cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc----HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHH
Q 043124          141 NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE----VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWG  214 (331)
Q Consensus       141 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~  214 (331)
                      +...+..+...+...|++++|...|++..+   ..|+    ...+..+..+|...|++++|+..+++. ...| +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            455566666667777777777777777662   2343    566667777777788888887777653 2334 466777


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          215 ALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       215 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                      .+..++...|++++|...++++++..|++...+..+....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            7777888888888888888888888888777766555544

>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=98.64  E-value=2e-07  Score=65.95  Aligned_cols=93  Identities=6%  Similarity=-0.055  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc-------hHHHH
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG-------YCTLL  250 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~l  250 (331)
                      .+..+...+.+.|++++|++.|++. .+.| +...|..+..+|...|++++|++.+++++++.|++..       +|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            4455666666666666666666652 2334 3555666666677777777777777777766554432       34556


Q ss_pred             HHHHHhcCCchHHHHHHHHHHh
Q 043124          251 LNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       251 ~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +.++...|++++|++.|++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            6666667777777777776654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.63  E-value=2.1e-07  Score=65.23  Aligned_cols=94  Identities=15%  Similarity=-0.001  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV  257 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  257 (331)
                      .+..+...+.+.|++++|+..+++. ...| +...+..+..++...|++++|...++++++++|++...+..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3555677888999999999999874 3445 5778888888899999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHHhc
Q 043124          258 SRWAEVTKIRVAMKEL  273 (331)
Q Consensus       258 g~~~~a~~~~~~m~~~  273 (331)
                      |++++|...+++..+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999998754

>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=98.62  E-value=9.3e-07  Score=63.06  Aligned_cols=96  Identities=7%  Similarity=-0.030  Sum_probs=47.2

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|+++.|...++++++.. +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            44455555555555555555555555555442 2234445555555555555555555555555543 223444444444


Q ss_pred             HHHhhCCHHHHHHHHhhc
Q 043124           85 MYAKCGSLDRSLLVFFKL  102 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~  102 (331)
                      ++...|++++|...|++.
T Consensus        86 ~~~~~~~~~~A~~~~~~a  103 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRA  103 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHH
Confidence            444444444444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.62  E-value=9.8e-07  Score=65.34  Aligned_cols=92  Identities=10%  Similarity=-0.041  Sum_probs=45.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|+..|++..+..  +.+...|..+..+|
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHH
Confidence            44455555555555555555555555442 2244444555555555555555555555554221  22244455555555


Q ss_pred             HHcCCHHHHHHHHHh
Q 043124          189 SKAGLLEDALELIRS  203 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~  203 (331)
                      ...|++++|...|++
T Consensus        90 ~~~g~~~~A~~~~~~  104 (164)
T 3sz7_A           90 FDMADYKGAKEAYEK  104 (164)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHH
Confidence            555555555555543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.62  E-value=2.8e-05  Score=68.32  Aligned_cols=89  Identities=6%  Similarity=-0.111  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhCCCCC--cHHHHHHHHHH-HhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc
Q 043124          181 YGCMVDLLSKAGLLEDALELIRSSKFQP--NAVIWGALLGG-CKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV  257 (331)
Q Consensus       181 ~~~l~~~~~~~~~~~~a~~~~~~~~~~p--~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  257 (331)
                      |...+..+.+.+..+.|..+|++.. .|  +...|...... +...++.+.|..+|+.+++..|+++..+...+....+.
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A~-~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~  367 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIELG-NEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRI  367 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHT-TSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhh-CCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHc
Confidence            4444444455667777777777652 22  22233222222 12233677788888887776676665555566666666


Q ss_pred             CCchHHHHHHHHH
Q 043124          258 SRWAEVTKIRVAM  270 (331)
Q Consensus       258 g~~~~a~~~~~~m  270 (331)
                      |+.+.|..+|+++
T Consensus       368 ~~~~~aR~l~er~  380 (493)
T 2uy1_A          368 GDEENARALFKRL  380 (493)
T ss_dssp             TCHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHH
Confidence            7777777666664

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.62  E-value=3.4e-07  Score=62.61  Aligned_cols=96  Identities=10%  Similarity=0.015  Sum_probs=46.4

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCC--chhHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDI--DVYIGSAL   82 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l   82 (331)
                      +...|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...++++.+.. +.  +..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            34445555555555555555555555555442 2234444455555555555555555555555442 22  23344444


Q ss_pred             HHHHHhh-CCHHHHHHHHhhc
Q 043124           83 VDMYAKC-GSLDRSLLVFFKL  102 (331)
Q Consensus        83 ~~~~~~~-g~~~~a~~~~~~~  102 (331)
                      ..++... |++++|.+.+++.
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~  103 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARA  103 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            4444444 4444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.60  E-value=4.3e-06  Score=72.19  Aligned_cols=192  Identities=13%  Similarity=0.025  Sum_probs=140.5

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCH----------------hhHHHHHHHHHccCCchHHHHHHHHHHHhC-CCCc
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQ----------------VTMATVLSACAHLGALDLGREIHLYVMQIG-FDID   75 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~   75 (331)
                      ...+.+.|++++|++.|.++.+.......                ..+..+...|...|++++|.+.+..+.+.- ..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            45678899999999999999886432211                237788999999999999999998886641 1112


Q ss_pred             h----hHHHHHHHHHHhhCCHHHHHHHHhhcCC-----C----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CC
Q 043124           76 V----YIGSALVDMYAKCGSLDRSLLVFFKLRE-----K----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE----NV  138 (331)
Q Consensus        76 ~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~  138 (331)
                      .    .+.+.+...+...|+.++|.++++....     .    -..++..++..+...|++++|..+++++...    +-
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    2334444555567899999998876642     1    1347888999999999999999999987653    11


Q ss_pred             CC-cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC---CCCCc--HhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          139 EP-NGVTFISVLSACTHAGLVEEGRRRFLSMTCGY---SITPE--VEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       139 ~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                      .+ ...++..++..|...|++++|..++++.....   ..++.  ...+..+...+...|++++|...+.+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            22 24578888999999999999999999876321   11221  345666677778899999999888764

>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=8.4e-07  Score=62.44  Aligned_cols=96  Identities=7%  Similarity=-0.034  Sum_probs=78.9

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC-------cchHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQ-PNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN-------SGYCT  248 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~  248 (331)
                      ...+..+...+...|++++|...+++. ... .+...+..+...+...|++++|...+++++...|.+       ...+.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345677778888888888888888763 223 356778888888999999999999999999977765       67788


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          249 LLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       249 ~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .++.++...|++++|...+++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            8999999999999999999998753

>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=98.57  E-value=2.3e-05  Score=64.61  Aligned_cols=228  Identities=14%  Similarity=0.043  Sum_probs=158.7

Q ss_pred             hhHHHHHHH---HHccCCch-HHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC----------HHHHHHHHhhcCC---
Q 043124           42 VTMATVLSA---CAHLGALD-LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS----------LDRSLLVFFKLRE---  104 (331)
Q Consensus        42 ~~~~~l~~~---~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~---  104 (331)
                      ..|..+...   ..+.|.++ +|+...+.++..+ +-+..+|+.--.++...|.          +++++.+++.+..   
T Consensus        27 ~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P  105 (331)
T 3dss_A           27 KLYQSATQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP  105 (331)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC
Confidence            345444443   34556655 8899999999875 3355666665555544443          6788888887764   


Q ss_pred             CChhhHHHHHHHHHhCC--CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc-HHHHHHHHHhhhhcCCCCCcHhHH
Q 043124          105 KNLFCWNSIIEGLAVHG--FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGL-VEEGRRRFLSMTCGYSITPEVEHY  181 (331)
Q Consensus       105 ~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~  181 (331)
                      .+..+|+.-...+...+  .++++++.++++.+.. +-|...|+.-...+...|. +++++..++.+.+..  +-+...|
T Consensus       106 Kny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~--p~N~SAW  182 (331)
T 3dss_A          106 KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSW  182 (331)
T ss_dssp             TCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--SCCHHHH
T ss_pred             CCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC--CCCHHHH
Confidence            36677888777787877  4899999999999985 5577777776666777787 689999999998543  4567777


Q ss_pred             HHHHHHHHHc--------------CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhc-----------CCHHHHHHHHH
Q 043124          182 GCMVDLLSKA--------------GLLEDALELIRSS-KFQP-NAVIWGALLGGCKLH-----------RNLEIAHIAVN  234 (331)
Q Consensus       182 ~~l~~~~~~~--------------~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~-----------~~~~~a~~~~~  234 (331)
                      +.....+.+.              +.++++++.+.+. ...| |...|+-+-..+...           +.++++.+.++
T Consensus       183 ~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~  262 (331)
T 3dss_A          183 HYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCK  262 (331)
T ss_dssp             HHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHH
Confidence            7776666554              4577888888763 3455 456665444444433           45889999999


Q ss_pred             HHHhcCCCCcchHHHHHHH---HHhcCCchHHHHHHHHHHhc
Q 043124          235 ELMILEPNNSGYCTLLLNM---YAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       235 ~~~~~~p~~~~~~~~l~~~---~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ++++..|++...+..++..   ....|..+++...+.++.+.
T Consensus       263 elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          263 ELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            9999999986555444332   23467788888899888753

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.55  E-value=4.7e-07  Score=63.42  Aligned_cols=92  Identities=11%  Similarity=-0.074  Sum_probs=47.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK   88 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (331)
                      +..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..++++++.. +.+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344445555555555555555555542 2244455555555555555555555555555543 2234445555555555


Q ss_pred             hCCHHHHHHHHhhc
Q 043124           89 CGSLDRSLLVFFKL  102 (331)
Q Consensus        89 ~g~~~~a~~~~~~~  102 (331)
                      .|++++|...|++.
T Consensus        98 ~g~~~~A~~~~~~a  111 (121)
T 1hxi_A           98 EHNANAALASLRAW  111 (121)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHH
Confidence            55555555555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.53  E-value=1.1e-06  Score=61.96  Aligned_cols=89  Identities=19%  Similarity=0.089  Sum_probs=47.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCc-H---HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC---cchHHHHHHHHH
Q 043124          184 MVDLLSKAGLLEDALELIRSS-KFQPN-A---VIWGALLGGCKLHRNLEIAHIAVNELMILEPNN---SGYCTLLLNMYA  255 (331)
Q Consensus       184 l~~~~~~~~~~~~a~~~~~~~-~~~p~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~  255 (331)
                      +...+...|++++|...|++. ...|+ .   ..+..+..++...|++++|...+++++...|++   +..+..++.++.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            344455555555555555542 11222 1   244445555556666666666666666655555   444555566666


Q ss_pred             hcCCchHHHHHHHHHHh
Q 043124          256 EVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       256 ~~g~~~~a~~~~~~m~~  272 (331)
                      ..|++++|...++++.+
T Consensus        88 ~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666665553

>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=98.52  E-value=7.6e-07  Score=77.69  Aligned_cols=148  Identities=10%  Similarity=-0.008  Sum_probs=99.5

Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-------------HhHHHHHHHHHH
Q 043124          123 AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-------------VEHYGCMVDLLS  189 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~  189 (331)
                      +++|...|+...+.. +-....+..+...+.+.|++++|+..|++..+...-.++             ...|..+..+|.
T Consensus       250 ~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  328 (457)
T 1kt0_A          250 FEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYL  328 (457)
T ss_dssp             EECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444333321 123456667778888888888888888888742211111             467777888888


Q ss_pred             HcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHH-H
Q 043124          190 KAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTK-I  266 (331)
Q Consensus       190 ~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~-~  266 (331)
                      +.|++++|+..+++. ...| +...+..+..++...|++++|...|++++++.|++..++..+..++.+.|+++++.. .
T Consensus       329 ~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~  408 (457)
T 1kt0_A          329 KLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRI  408 (457)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888763 2334 577778888888888888888888888888888888888888888888888877653 4


Q ss_pred             HHHHH
Q 043124          267 RVAMK  271 (331)
Q Consensus       267 ~~~m~  271 (331)
                      ++.|.
T Consensus       409 ~~~~f  413 (457)
T 1kt0_A          409 YANMF  413 (457)
T ss_dssp             HHHC-
T ss_pred             HHHHH
Confidence            55543

>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=98.52  E-value=1.3e-06  Score=76.28  Aligned_cols=129  Identities=6%  Similarity=-0.130  Sum_probs=101.3

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc---------------HHHHHHHHHHHhccCcHHHHHHHHHhhhhc
Q 043124          107 LFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPN---------------GVTFISVLSACTHAGLVEEGRRRFLSMTCG  171 (331)
Q Consensus       107 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  171 (331)
                      ...|..+...+.+.|++++|...|++.++.. +.+               ...|..+..++.+.|++++|+..+++..+.
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            4578889999999999999999999998863 222               578888999999999999999999999843


Q ss_pred             CCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHH-HHHHHHh
Q 043124          172 YSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHI-AVNELMI  238 (331)
Q Consensus       172 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~  238 (331)
                      .  +.+...|..+..+|...|++++|+..|++. .+.|+ ...+..+..++...++.+++.+ .+++|..
T Consensus       347 ~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          347 D--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             S--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             C--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            2  345788889999999999999999999873 45664 5667777777888888887764 4444443

>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=98.51  E-value=7.2e-07  Score=64.80  Aligned_cols=62  Identities=11%  Similarity=-0.001  Sum_probs=51.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhc-------CCCCcchH----HHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMIL-------EPNNSGYC----TLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      .|..+..++...|++++|+..+++++++       +|++...|    ...+.++...|++++|+..|++..+.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            7777777788888888888888888887       88888888    88888888899999998888888754

>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=98.50  E-value=3.9e-07  Score=79.90  Aligned_cols=118  Identities=7%  Similarity=-0.073  Sum_probs=83.4

Q ss_pred             HHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHH
Q 043124          150 SACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLE  227 (331)
Q Consensus       150 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~  227 (331)
                      ..+.+.|++++|...|++..+..  +.+...|..+..+|.+.|++++|++.+++. ...| +...+..+..++...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            34556677777777777776332  234667777777777888888887777753 2344 4667778888888889999


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHH--HHhcCCchHHHHHHHH
Q 043124          228 IAHIAVNELMILEPNNSGYCTLLLNM--YAEVSRWAEVTKIRVA  269 (331)
Q Consensus       228 ~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~  269 (331)
                      +|.+.++++++..|++...+..+..+  +.+.|++++|...+++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            99999999888888888887777777  7888888888888873

>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=98.50  E-value=2.1e-06  Score=60.32  Aligned_cols=92  Identities=10%  Similarity=0.042  Sum_probs=43.5

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---C-------hhhHHHH
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---N-------LFCWNSI  113 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-------~~~~~~l  113 (331)
                      +..+...+...|+++.|...++++.+.. +.+..++..+..++...|++++|...+++..+.   +       ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3334444444444444444444444432 223334444444444444444444444433211   1       3345556


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHc
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      ..++...|++++|.+.|++..+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh
Confidence            66666666666666666666654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.49  E-value=7.3e-07  Score=65.30  Aligned_cols=63  Identities=14%  Similarity=0.116  Sum_probs=34.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC-CC----HhhHHHHHHHHHccCCchHHHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGIS-PD----QVTMATVLSACAHLGALDLGREIHLYVMQ   69 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   69 (331)
                      .++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|...+++..+
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~   77 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLL   77 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555666666666666666666665443100 01    12445555555666666666666655543

>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=98.44  E-value=1.8e-06  Score=72.97  Aligned_cols=89  Identities=11%  Similarity=0.056  Sum_probs=76.5

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY  254 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  254 (331)
                      +...|..+..+|.+.|++++|++.+++ +...| +...+..+..++...|++++|...+++++++.|++...+..+..++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            456788888999999999999999986 34555 4778888889999999999999999999999999998988888888


Q ss_pred             HhcCCchHHHH
Q 043124          255 AEVSRWAEVTK  265 (331)
Q Consensus       255 ~~~g~~~~a~~  265 (331)
                      ...++.+++.+
T Consensus       352 ~~~~~~~~a~k  362 (370)
T 1ihg_A          352 QKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888777654

>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=98.42  E-value=2.4e-06  Score=72.25  Aligned_cols=114  Identities=13%  Similarity=0.055  Sum_probs=93.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCC-----------------CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCC
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSSK-----------------FQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEP  241 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~~-----------------~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  241 (331)
                      .+..+...+.+.|++++|++.+++.-                 ..| +...|..+..++.+.|++++|...++++++..|
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            45666677778888888877776531                 233 356788888889999999999999999999999


Q ss_pred             CCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          242 NNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       242 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      ++..++..+..+|...|++++|...+++..+                           ..|++..++..+..++..+++
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~---------------------------l~P~~~~~~~~l~~~~~~~~~  356 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQE---------------------------IAPEDKAIQAELLKVKQKIKA  356 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------------------HCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHH---------------------------hCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999874                           347778888888888876654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.41  E-value=6.9e-06  Score=57.72  Aligned_cols=97  Identities=13%  Similarity=-0.024  Sum_probs=53.7

Q ss_pred             HHHHhccCcHHHHHHHHHhhhhcCCCCCcH---hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHH
Q 043124          149 LSACTHAGLVEEGRRRFLSMTCGYSITPEV---EHYGCMVDLLSKAGLLEDALELIRSS-KFQPN----AVIWGALLGGC  220 (331)
Q Consensus       149 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~  220 (331)
                      ...+...|++++|...|+.+.+..  +.+.   ..+..+..++...|++++|...+++. ...|+    ...+..+..++
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            344455555555555555555221  1111   34444555566666666666665542 12222    34455566667


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCcchH
Q 043124          221 KLHRNLEIAHIAVNELMILEPNNSGYC  247 (331)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~p~~~~~~  247 (331)
                      ...|++++|...+++++...|++....
T Consensus        87 ~~~g~~~~A~~~~~~~~~~~p~~~~~~  113 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQYPGSDAAR  113 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTSHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHCCCChHHH
Confidence            777777777777777777777655443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.40  E-value=1.9e-06  Score=63.02  Aligned_cols=128  Identities=13%  Similarity=-0.019  Sum_probs=79.0

Q ss_pred             hhHHHHHHHHHccCCchHHHHHHHHHHHhCCC-Cc----hhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-----C----h
Q 043124           42 VTMATVLSACAHLGALDLGREIHLYVMQIGFD-ID----VYIGSALVDMYAKCGSLDRSLLVFFKLREK-----N----L  107 (331)
Q Consensus        42 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~----~  107 (331)
                      .++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++..+.     +    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            45667777778888888888888777654211 01    135666777777778887777777665421     1    2


Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYE----NVEP-NGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      .++..+...+...|++++|.+.+++..+.    +.++ ....+..+...+...|++++|...+++..
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            35666666777777777777777666532    1111 12344555556666666666666666554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.39  E-value=4.2e-07  Score=63.21  Aligned_cols=61  Identities=8%  Similarity=0.058  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..+..+..++...|++++|...++++++..|++...+..++.++...|++++|...+++..
T Consensus        28 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   88 (117)
T 3k9i_A           28 ECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKII   88 (117)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444445555555555555555555555555555555555555555555555555544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.35  E-value=2.7e-06  Score=74.40  Aligned_cols=124  Identities=11%  Similarity=0.008  Sum_probs=98.4

Q ss_pred             HHhccCcHHHHHHHHHhhhhcC--CCC---C-cHhHHHHHHHHHHHcCCHHHHHHHHHhC--------C-CCCc-HHHHH
Q 043124          151 ACTHAGLVEEGRRRFLSMTCGY--SIT---P-EVEHYGCMVDLLSKAGLLEDALELIRSS--------K-FQPN-AVIWG  214 (331)
Q Consensus       151 ~~~~~~~~~~a~~~~~~~~~~~--~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------~-~~p~-~~~~~  214 (331)
                      .+...|++++|+.++++..+..  -+.   | ...+++.|..+|...|++++|..++++.        | ..|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            3567899999999998866421  111   2 3678999999999999999999987752        3 4555 56788


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHHh-----cCCCCcch---HHHHHHHHHhcCCchHHHHHHHHHHhcC
Q 043124          215 ALLGGCKLHRNLEIAHIAVNELMI-----LEPNNSGY---CTLLLNMYAEVSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       215 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~  274 (331)
                      .|...|...|++++|+.+++++++     .+|+++.+   ...+..++...|.+++|..+++++++.-
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987     56766544   4567888889999999999999998743

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.35  E-value=7.4e-06  Score=55.78  Aligned_cols=64  Identities=6%  Similarity=-0.090  Sum_probs=48.1

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          209 NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       209 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      +...+..+...+...|++++|...++++++..|++...+..++.++.+.|++++|...+++..+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            4455666667777777888888888887777777777777777778888888888877777763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.34  E-value=1.3e-06  Score=72.92  Aligned_cols=146  Identities=9%  Similarity=-0.074  Sum_probs=79.5

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL  187 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  187 (331)
                      ..+..+...+.+.|++++|...|++..+.  .|+...       +...++.+++...+   .        ...|..+..+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~~  239 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHHH
Confidence            35667777777888888888888887765  344331       23344444443322   1        1367778888


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHH-HhcCCchHHH
Q 043124          188 LSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMY-AEVSRWAEVT  264 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a~  264 (331)
                      |.+.|++++|+..+++. ...| +...+..+..++...|++++|...|++++++.|++..++..|..+. ...+..+.+.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988863 3444 5778888888999999999999999999999998888877777663 4456677788


Q ss_pred             HHHHHHHhc
Q 043124          265 KIRVAMKEL  273 (331)
Q Consensus       265 ~~~~~m~~~  273 (331)
                      .+|++|...
T Consensus       320 ~~~~~~l~~  328 (338)
T 2if4_A          320 EMYKGIFKG  328 (338)
T ss_dssp             ---------
T ss_pred             HHHHHhhCC
Confidence            888887644

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.30  E-value=5.3e-06  Score=69.31  Aligned_cols=91  Identities=10%  Similarity=-0.052  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH-Hh
Q 043124           78 IGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA-CT  153 (331)
Q Consensus        78 ~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~  153 (331)
                      +|..+..+|.+.|++++|+..|++..+   .+..+|..+..+|...|++++|...|++..+.. +-+...+..+... ..
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~  310 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQ  310 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            455555666666666666666555432   244556666666666666666666666655432 1122233333222 12


Q ss_pred             ccCcHHHHHHHHHhhh
Q 043124          154 HAGLVEEGRRRFLSMT  169 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~  169 (331)
                      ..+..+.+...|..+.
T Consensus       311 ~~~~~~~a~~~~~~~l  326 (338)
T 2if4_A          311 EKALYQKQKEMYKGIF  326 (338)
T ss_dssp             ----------------
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            3344555555555555

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.28  E-value=1.5e-06  Score=60.32  Aligned_cols=91  Identities=10%  Similarity=-0.011  Sum_probs=58.4

Q ss_pred             cCcHHHHHHHHHhhhhcCC--CCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHH
Q 043124          155 AGLVEEGRRRFLSMTCGYS--ITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       155 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      .|++++|+..|++.. ..+  -+.+...+..+..+|...|++++|+..+++. ...| +...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al-~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAI-ASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHH-SSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHH-HcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            466677777777776 221  1223556667777777777777777777753 2334 3666677777778888888888


Q ss_pred             HHHHHHHhcCCCCcch
Q 043124          231 IAVNELMILEPNNSGY  246 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~  246 (331)
                      ..++++++..|+++..
T Consensus        82 ~~~~~al~~~p~~~~~   97 (117)
T 3k9i_A           82 ELLLKIIAETSDDETI   97 (117)
T ss_dssp             HHHHHHHHHHCCCHHH
T ss_pred             HHHHHHHHhCCCcHHH
Confidence            8888888877776554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.28  E-value=7.1e-06  Score=53.62  Aligned_cols=61  Identities=18%  Similarity=0.131  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..+..+...+...|++++|...++++++..|++...+..+..++.+.|++++|...+++..
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3444444455555555555555555555555555555555555555555555555555554

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.28  E-value=4e-07  Score=79.86  Aligned_cols=122  Identities=8%  Similarity=-0.014  Sum_probs=93.3

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYA   87 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (331)
                      .|..+...+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|+..++++++.. +.+..++..+..+|.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34445556778899999999999998864 3467888899999999999999999999998874 446778888999999


Q ss_pred             hhCCHHHHHHHHhhcCC--C-ChhhHHHHHHH--HHhCCCHHHHHHHHH
Q 043124           88 KCGSLDRSLLVFFKLRE--K-NLFCWNSIIEG--LAVHGFAHEALAMFD  131 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~--~~~~~~~~~a~~~~~  131 (331)
                      ..|++++|.+.|++..+  | +...+..+..+  +.+.|++++|++.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999987753  2 44566666666  778889999999888

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.27  E-value=4.7e-06  Score=61.46  Aligned_cols=67  Identities=18%  Similarity=0.077  Sum_probs=54.2

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      ...|..+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|...+++++++.|++.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            457777888888888888888888763 3344 477888888888999999999999999999998876

>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=98.24  E-value=0.00012  Score=65.56  Aligned_cols=184  Identities=11%  Similarity=-0.039  Sum_probs=95.2

Q ss_pred             chHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC----------HHHHHHHHhhcCCC---ChhhHHHHHHHHHhCC--
Q 043124           57 LDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS----------LDRSLLVFFKLREK---NLFCWNSIIEGLAVHG--  121 (331)
Q Consensus        57 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~--  121 (331)
                      .++|++.+++++..+ +-+..+|+.-..++...|+          ++++++.++.+.+.   +..+|+.-..++.+.+  
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccc
Confidence            345566666666654 2244555555555555444          45555555544421   3334444444444444  


Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC-cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHH
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAG-LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALEL  200 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  200 (331)
                      +++++++.++++.+.+ +-+...|+.-...+.+.| .++++.+.++++.+..  +-+...|+.....+.+.+...+    
T Consensus       124 ~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~----  196 (567)
T 1dce_A          124 NWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPD----  196 (567)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCC----
T ss_pred             cHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhccccc----
Confidence            3455555555555443 234444444433444444 4444444444444211  2233334333333222111100    


Q ss_pred             HHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchH
Q 043124          201 IRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAE  262 (331)
Q Consensus       201 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  262 (331)
                         .+  +..         -...+.++++.+.+++++..+|++..+|..+...+.+.++.++
T Consensus       197 ---~~--~~~---------~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          197 ---SG--PQG---------RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             ---SS--SCC---------SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ---cc--ccc---------cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence               00  000         0012557999999999999999999999999999988888555

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.22  E-value=0.00066  Score=59.65  Aligned_cols=203  Identities=10%  Similarity=-0.048  Sum_probs=122.7

Q ss_pred             hHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHH-HHHHhh
Q 043124           23 REALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRS-LLVFFK  101 (331)
Q Consensus        23 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~~~~~  101 (331)
                      +.+..+|+++.... +.+...|...+..+...|+++.|..+++.+.+.  +.+...+..    |....+.++. ..+.+.
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~  268 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRK  268 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHH
Confidence            45677888887753 456777777777778889999999999998887  334333332    2222111111 112221


Q ss_pred             cC--C-------C---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc-cCcHHHHHHHHHhh
Q 043124          102 LR--E-------K---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH-AGLVEEGRRRFLSM  168 (331)
Q Consensus       102 ~~--~-------~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~  168 (331)
                      ..  +       +   ....|...+....+.+..+.|..+|++. .. .+.+...|...+..-.. .++.+.|..+|+..
T Consensus       269 ~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          269 YSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             TC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            11  0       0   1234666666666677788888888877 32 12233344322221112 23578888888887


Q ss_pred             hhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Q 043124          169 TCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMI  238 (331)
Q Consensus       169 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  238 (331)
                      .+..+  -++..+...++.....|+.+.|..+|+...  .....|...+..-...|+.+.+..+++++..
T Consensus       347 l~~~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          347 LLKHP--DSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            74432  234455556676777788888888888763  2456666666666667888888777777765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.20  E-value=6.4e-06  Score=72.01  Aligned_cols=120  Identities=5%  Similarity=-0.110  Sum_probs=83.5

Q ss_pred             HHccCCchHHHHHHHHHHHhC---CC----CchhHHHHHHHHHHhhCCHHHHHHHHhhcCC-------C---C-hhhHHH
Q 043124           51 CAHLGALDLGREIHLYVMQIG---FD----IDVYIGSALVDMYAKCGSLDRSLLVFFKLRE-------K---N-LFCWNS  112 (331)
Q Consensus        51 ~~~~~~~~~a~~~~~~~~~~~---~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-------~---~-~~~~~~  112 (331)
                      +...|++++|+.++++.++..   +.    ....+++.|..+|...|++++|+.++++..+       +   + ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            457788888888888876641   11    1356788888888888888888888776542       1   1 246888


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHc-----C--CCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhh
Q 043124          113 IIEGLAVHGFAHEALAMFDRMIYE-----N--VEPNGVTFISVLSACTHAGLVEEGRRRFLSMTC  170 (331)
Q Consensus       113 li~~~~~~~~~~~a~~~~~~m~~~-----~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  170 (331)
                      |...|...|++++|+.++++..+.     |  .+....+.+.+-.++...+.+++|+.+|.++++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888876642     3  222234445555666777788888888887764

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.20  E-value=9.4e-07  Score=60.42  Aligned_cols=93  Identities=15%  Similarity=-0.041  Sum_probs=72.8

Q ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC------cchHH
Q 043124          177 EVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN------SGYCT  248 (331)
Q Consensus       177 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  248 (331)
                      +...+..+...+...|++++|++.+++. ...| +...+..+..++...|++++|...++++++..|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4556777788888889999998888863 2334 57778888888999999999999999999999987      66667


Q ss_pred             HHHHHHHhcCCchHHHHHHHH
Q 043124          249 LLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       249 ~l~~~~~~~g~~~~a~~~~~~  269 (331)
                      .+..++...|+++.|...+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            777777777777776655544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.19  E-value=1e-05  Score=54.33  Aligned_cols=65  Identities=20%  Similarity=0.157  Sum_probs=58.0

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          209 NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       209 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      +...+..+..++...|++++|...++++++.+|++...|..+..+|...|++++|...+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46778888888999999999999999999999999999999999999999999999999988754

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.17  E-value=3.1e-05  Score=56.20  Aligned_cols=61  Identities=13%  Similarity=-0.002  Sum_probs=31.8

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCC------CH-----hhHHHHHHHHHccCCchHHHHHHHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSGISP------DQ-----VTMATVLSACAHLGALDLGREIHLYVMQ   69 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p------~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~   69 (331)
                      +......+.+.|++++|+..|++..+.....      +.     ..|..+..++.+.|++++|+..+++.++
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4445555666667777777766666542110      11     1444455555555555555555554444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.09  E-value=5e-05  Score=49.41  Aligned_cols=83  Identities=12%  Similarity=0.144  Sum_probs=61.0

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+..++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45667778888888888888888888887764 3356677778888888888888888888887764 335566666666


Q ss_pred             HHHhh
Q 043124           85 MYAKC   89 (331)
Q Consensus        85 ~~~~~   89 (331)
                      ++.+.
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66544

>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=98.08  E-value=6.4e-05  Score=53.71  Aligned_cols=110  Identities=8%  Similarity=-0.074  Sum_probs=77.4

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----hCCHHHH
Q 043124           20 KQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK----CGSLDRS   95 (331)
Q Consensus        20 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a   95 (331)
                      +++++|+..|++..+.| .|+..    |...|...+.++.|.+.|++..+.|   +...+..|..+|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            46778888888888776 23333    6666666677777888888877765   45666777777776    6777777


Q ss_pred             HHHHhhcCC-CChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcC
Q 043124           96 LLVFFKLRE-KNLFCWNSIIEGLAV----HGFAHEALAMFDRMIYEN  137 (331)
Q Consensus        96 ~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  137 (331)
                      .+.|++..+ .++.++..|...|..    .+++++|.+.|++..+.|
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            777776654 355667777777776    677777777777777665

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.07  E-value=1.5e-05  Score=54.91  Aligned_cols=77  Identities=12%  Similarity=-0.014  Sum_probs=53.8

Q ss_pred             HHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          197 ALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       197 a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      |++.+++ +...| +...+..+...+...|++++|...++++++..|++...+..++.+|...|++++|...+++..+.
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4444443 23334 45666677777777778888888888877777777777777777788888888888777776643

>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=98.03  E-value=0.00028  Score=63.06  Aligned_cols=166  Identities=10%  Similarity=-0.048  Sum_probs=121.8

Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCc----------HHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcC
Q 043124          123 AHEALAMFDRMIYENVEPNGVTFISVLSACTHAGL----------VEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAG  192 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  192 (331)
                      .++|++.++++...+ +-+...|+.--..+...|+          ++++...++.+.+..  +-+..+|+.-..++.+.+
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~--pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCS
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcc
Confidence            467788888888764 3345556554445555555          888999999888443  446777877777777888


Q ss_pred             --CHHHHHHHHHhCC-CCC-cHHHHHHHHHHHhhcC-CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc----------
Q 043124          193 --LLEDALELIRSSK-FQP-NAVIWGALLGGCKLHR-NLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV----------  257 (331)
Q Consensus       193 --~~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----------  257 (331)
                        ++++++++++++- ..| +...|+.-...+...| .++++.+.++++++.+|.+..+|.....++.+.          
T Consensus       122 ~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          122 EPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence              6699999888752 333 5677777666777778 899999999999999999999999888887764          


Q ss_pred             ----CCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHH
Q 043124          258 ----SRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQL  318 (331)
Q Consensus       258 ----g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~  318 (331)
                          +.++++.+.+++...                           .+|++..++..++.++...
T Consensus       202 ~~~~~~~~eel~~~~~ai~---------------------------~~P~~~saW~y~~~ll~~~  239 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFF---------------------------TDPNDQSAWFYHRWLLGRA  239 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHH---------------------------HCSSCSHHHHHHHHHHSCC
T ss_pred             cccHHHHHHHHHHHHHHHh---------------------------hCCCCccHHHHHHHHHhcC
Confidence                456778888877763                           3477777887777776543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.90  E-value=6.2e-05  Score=53.79  Aligned_cols=50  Identities=20%  Similarity=0.118  Sum_probs=24.0

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----cCCchHHHHHHHHHHhcC
Q 043124          223 HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAE----VSRWAEVTKIRVAMKELG  274 (331)
Q Consensus       223 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  274 (331)
                      .+++++|.++++++.+.  .++..+..|..+|..    .+++++|...+++..+.|
T Consensus        74 ~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           74 KKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            44455555555554443  223344445555554    455555555555554443

>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=97.84  E-value=2.1e-05  Score=56.93  Aligned_cols=103  Identities=13%  Similarity=0.128  Sum_probs=54.3

Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcH----------HHHHHHHHhhhhcCCCCC-cHhHHHHHHHH
Q 043124          119 VHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLV----------EEGRRRFLSMTCGYSITP-EVEHYGCMVDL  187 (331)
Q Consensus       119 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~  187 (331)
                      +.+.+++|.+.+++..+.+ +.+...+..+..++...+++          ++|+..|++..+-   .| ....|..+..+
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l---dP~~~~A~~~LG~a   89 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI---DPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh---CcCcHHHHHHHHHH
Confidence            3445566666666665553 34555555555555555543          2444444444411   22 23334444444


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          188 LSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      |...|.+            .|+..         ...|++++|.+.|+++++++|++..+
T Consensus        90 y~~lg~l------------~P~~~---------~a~g~~~eA~~~~~kAl~l~P~~~~y  127 (158)
T 1zu2_A           90 YTSFAFL------------TPDET---------EAKHNFDLATQFFQQAVDEQPDNTHY  127 (158)
T ss_dssp             HHHHHHH------------CCCHH---------HHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHhccc------------Ccchh---------hhhccHHHHHHHHHHHHHhCCCCHHH
Confidence            4333322            22211         01268999999999999999986543

>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=97.83  E-value=1e-05  Score=58.59  Aligned_cols=82  Identities=15%  Similarity=0.105  Sum_probs=59.0

Q ss_pred             CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCC----------HHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC-
Q 043124          192 GLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRN----------LEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS-  258 (331)
Q Consensus       192 ~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-  258 (331)
                      +.+++|++.+++. ...| +...|..+..++...++          +++|+..|+++++++|+...+|..++.+|...| 
T Consensus        16 ~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~   95 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAF   95 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcc
Confidence            3445555555432 2233 34444444444444433          679999999999999999999999999999875 


Q ss_pred             ----------CchHHHHHHHHHHhc
Q 043124          259 ----------RWAEVTKIRVAMKEL  273 (331)
Q Consensus       259 ----------~~~~a~~~~~~m~~~  273 (331)
                                ++++|...|++..+.
T Consensus        96 l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           96 LTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcchhhhhccHHHHHHHHHHHHHh
Confidence                      899999999999864

>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=97.83  E-value=6.8e-05  Score=64.54  Aligned_cols=116  Identities=10%  Similarity=0.061  Sum_probs=85.1

Q ss_pred             HHHHHHcCCHHHHHHHHHhC--------C-CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHh-----cCCC---Ccch
Q 043124          185 VDLLSKAGLLEDALELIRSS--------K-FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMI-----LEPN---NSGY  246 (331)
Q Consensus       185 ~~~~~~~~~~~~a~~~~~~~--------~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~---~~~~  246 (331)
                      +..+.+.|++++|+.++++.        + ..|+ ..+++.|..+|...|++++|+.+++++++     ..|+   ....
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            44566789999999988752        1 2233 46788888899999999999999999986     3344   4455


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHH
Q 043124          247 CTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLK  319 (331)
Q Consensus       247 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  319 (331)
                      ++.|+..|...|++++|..++++..+.-..                   .-...||...+++..|......++
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~-------------------~lG~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRV-------------------THGREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-------------------HTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-------------------hcCCCChHHHHHHHHHHHHHHHHh
Confidence            788999999999999999999988643110                   012456666677777777777665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.82  E-value=9.6e-05  Score=49.06  Aligned_cols=61  Identities=15%  Similarity=0.182  Sum_probs=29.2

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-cHH-HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          186 DLLSKAGLLEDALELIRSS-KFQP-NAV-IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~~~-~~~p-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      ..+...|++++|+..+++. ...| +.. .+..+..++...|++++|...++++++..|++...
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~   71 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPAL   71 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHH
Confidence            3444555555555555442 1223 233 44444444555555555555555555555554444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.81  E-value=0.00017  Score=49.38  Aligned_cols=78  Identities=9%  Similarity=-0.055  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC
Q 043124           24 EALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        24 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      .|+..|++..+.. +.+...+..+..++...|++++|+..++++++.. +.+...+..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666543 3355566666666667777777777777666654 3345556666666666666666666665543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.80  E-value=0.00035  Score=45.88  Aligned_cols=68  Identities=16%  Similarity=0.087  Sum_probs=57.0

Q ss_pred             CcHHHHHHHHHHHhhcCC---HHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCC
Q 043124          208 PNAVIWGALLGGCKLHRN---LEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGI  275 (331)
Q Consensus       208 p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  275 (331)
                      .+...+..+..++...++   .++|..+++++++.+|+++.....++..+.+.|++++|...|+++.+...
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            456677777777654444   79999999999999999999999999999999999999999999987654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.75  E-value=9.8e-05  Score=49.34  Aligned_cols=61  Identities=13%  Similarity=0.159  Sum_probs=28.3

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                      ..+..+..++...|++++|+..|++..+.+ +.+...|..+..++...|++++|...|++..
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444444445555555555555444432 2223344444444445555555555444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.74  E-value=0.00016  Score=51.85  Aligned_cols=89  Identities=9%  Similarity=0.059  Sum_probs=51.0

Q ss_pred             CcHHHHHHHHHHHhhcC---CHHHHHHHHHHHHhcC-C-CCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCcc
Q 043124          208 PNAVIWGALLGGCKLHR---NLEIAHIAVNELMILE-P-NNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGS  282 (331)
Q Consensus       208 p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  282 (331)
                      ++..+...+..++++.+   +++++..++++..+.+ | +....+..|..+|.+.|++++|.+.++.+.+          
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~----------   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ----------   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH----------
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh----------
Confidence            45555555555555555   4446666666666655 4 3344555566666666666666666666652          


Q ss_pred             ceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhcCc
Q 043124          283 SWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASY  323 (331)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~g~  323 (331)
                                       .+|++..+......+-+.+.+.|+
T Consensus       100 -----------------ieP~n~QA~~Lk~~ie~~~~kdgl  123 (152)
T 1pc2_A          100 -----------------TEPQNNQAKELERLIDKAMKKDGL  123 (152)
T ss_dssp             -----------------HCTTCHHHHHHHHHHHHHHHHTTC
T ss_pred             -----------------cCCCCHHHHHHHHHHHHHHHHhhH
Confidence                             345555666655555555555553

>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=97.63  E-value=0.00011  Score=63.13  Aligned_cols=83  Identities=13%  Similarity=0.005  Sum_probs=64.7

Q ss_pred             HcCCHHHHHHHHHhC--------C-CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHh-----cCCC---CcchHHHHH
Q 043124          190 KAGLLEDALELIRSS--------K-FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMI-----LEPN---NSGYCTLLL  251 (331)
Q Consensus       190 ~~~~~~~a~~~~~~~--------~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~---~~~~~~~l~  251 (331)
                      ..|++++|+.++++.        + ..|+ ..+++.|..+|...|++++|+.+++++++     .+|+   ....++.|+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            356788888887642        2 3344 46788888899999999999999999986     3444   445578899


Q ss_pred             HHHHhcCCchHHHHHHHHHHh
Q 043124          252 NMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       252 ~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .+|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998764

>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=97.52  E-value=0.0054  Score=50.93  Aligned_cols=138  Identities=8%  Similarity=-0.046  Sum_probs=75.4

Q ss_pred             ChhhHHHHHHHHH--hCCC---HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc---C-----cHHHHHHHHHhhhhcC
Q 043124          106 NLFCWNSIIEGLA--VHGF---AHEALAMFDRMIYENVEPNGVTFISVLSACTHA---G-----LVEEGRRRFLSMTCGY  172 (331)
Q Consensus       106 ~~~~~~~li~~~~--~~~~---~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---~-----~~~~a~~~~~~~~~~~  172 (331)
                      +..+|...+.+..  ..++   ..+|..+|++.++.. |-....+..+..++...   +     ........+.......
T Consensus       193 ~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~  271 (372)
T 3ly7_A          193 RGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLP  271 (372)
T ss_dssp             SGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCG
T ss_pred             CHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcc
Confidence            5555655554432  2222   467777777777753 22244444333333210   0     1111111111111011


Q ss_pred             CCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc
Q 043124          173 SITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS  244 (331)
Q Consensus       173 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  244 (331)
                      ..+.+..+|..+...+...|++++|...+++. ...|+...|..+...+.-.|++++|.+.+++++.++|...
T Consensus       272 ~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          272 ELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             GGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             cCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            22445667776666666678888887777753 2456766666666667777888888888888887777744

>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=97.49  E-value=0.00043  Score=59.54  Aligned_cols=93  Identities=12%  Similarity=-0.071  Sum_probs=73.2

Q ss_pred             ccCcHHHHHHHHHhhhhcC--CCCC----cHhHHHHHHHHHHHcCCHHHHHHHHHhC--------C-CCCc-HHHHHHHH
Q 043124          154 HAGLVEEGRRRFLSMTCGY--SITP----EVEHYGCMVDLLSKAGLLEDALELIRSS--------K-FQPN-AVIWGALL  217 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------~-~~p~-~~~~~~l~  217 (331)
                      ..|++++|..++++..+..  -+.|    ...+++.|..+|...|++++|+.++++.        | ..|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            4578999999998866321  1122    2578999999999999999999988752        3 4565 56789999


Q ss_pred             HHHhhcCCHHHHHHHHHHHHh-----cCCCCcch
Q 043124          218 GGCKLHRNLEIAHIAVNELMI-----LEPNNSGY  246 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~  246 (331)
                      ..|...|++++|+.+++++++     .+|+++.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~  423 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYI  423 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHH
Confidence            999999999999999999987     66877655

>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=97.47  E-value=0.0014  Score=56.36  Aligned_cols=99  Identities=14%  Similarity=-0.004  Sum_probs=77.9

Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCC--CCC----cHhHHHHHHHHHHHcCCHHHHHHHHHhC--------C-CCCc-HH
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYS--ITP----EVEHYGCMVDLLSKAGLLEDALELIRSS--------K-FQPN-AV  211 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------~-~~p~-~~  211 (331)
                      .+..+.+.|++++|..++++..+...  +.|    ...+++.+..+|...|++++|+.++++.        | ..|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            45566788999999999998874221  122    2568899999999999999999988752        2 4555 56


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHh-----cCCCCcch
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMI-----LEPNNSGY  246 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~  246 (331)
                      +++.|...|...|++++|+.+++++++     .+|+++.+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~  412 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLI  412 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHH
Confidence            788899999999999999999999987     66877655

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.38  E-value=0.021  Score=53.34  Aligned_cols=156  Identities=11%  Similarity=0.054  Sum_probs=96.6

Q ss_pred             HHHHhCCChhHHHH-HHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCH
Q 043124           14 TCYSQNKQFREALD-AFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSL   92 (331)
Q Consensus        14 ~~~~~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   92 (331)
                      ......+++++|.+ ++..     + |+......++..+.+.|..+.|.++.+.       |.     .-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCH
Confidence            34456788888876 4422     1 1122336777778888888888776531       11     113445678999


Q ss_pred             HHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC
Q 043124           93 DRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGY  172 (331)
Q Consensus        93 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  172 (331)
                      ++|.++.+.+.  +...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++-+... ..
T Consensus       669 ~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~-~~  736 (814)
T 3mkq_A          669 TLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE-TT  736 (814)
T ss_dssp             HHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH-HT
T ss_pred             HHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH-Hc
Confidence            99999987774  567899999999999999999999998743         2234444444666655544444433 11


Q ss_pred             CCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 043124          173 SITPEVEHYGCMVDLLSKAGLLEDALELIRSSK  205 (331)
Q Consensus       173 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  205 (331)
                      |      -++.-..+|.+.|++++|++++.+++
T Consensus       737 ~------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          737 G------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             C------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            1      12223334555566666666555544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.29  E-value=0.005  Score=57.52  Aligned_cols=99  Identities=12%  Similarity=0.105  Sum_probs=57.5

Q ss_pred             HHhhCCHHHHHH-HHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHH
Q 043124           86 YAKCGSLDRSLL-VFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        86 ~~~~g~~~~a~~-~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      ....+++++|.+ ++..+.  +......++..+.+.|.++.|+++.+.       |. .-    .......|+++.|.++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-~~----f~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPD-------QD-QK----FELALKVGQLTLARDL  674 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-HH----HHHHHHHTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCC-------cc-hh----eehhhhcCCHHHHHHH
Confidence            345667777766 443332  011225566666667777776655421       11 11    2233456777777776


Q ss_pred             HHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 043124          165 FLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK  205 (331)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  205 (331)
                      .+.+.       +...|..+...+.+.++++.|.++|.+++
T Consensus       675 ~~~~~-------~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          675 LTDES-------AEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HTTCC-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHhhC-------cHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            55443       44677777777777777777777777665

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.28  E-value=0.021  Score=39.57  Aligned_cols=143  Identities=8%  Similarity=0.008  Sum_probs=101.2

Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLED  196 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  196 (331)
                      +.-.|..++..++..+....   .+..-+|.+|.-....-+-+-..++++.+-+-+++              ..+|+...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHH
Confidence            34467777777777777654   34555666665555666666666666666533322              24566666


Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          197 ALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       197 a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      ....+-.++  .+...+...+..+...|+-++-.++...++...|.++.+...+..+|.+.|+..+|.+++++.-+.|++
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            666666665  344556677888899999999999999976655555888888999999999999999999999999876


Q ss_pred             CC
Q 043124          277 KR  278 (331)
Q Consensus       277 ~~  278 (331)
                      ..
T Consensus       158 EA  159 (172)
T 1wy6_A          158 EA  159 (172)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.27  E-value=0.0025  Score=41.93  Aligned_cols=54  Identities=17%  Similarity=0.125  Sum_probs=33.0

Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCCCCCcHh-HHHHHHHHHHHcCCHHHHHHHHHh
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYSITPEVE-HYGCMVDLLSKAGLLEDALELIRS  203 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~  203 (331)
                      ....+...|++++|...|++..+..  +.+.. .+..+..+|...|++++|.+.|++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~   60 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQS   60 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445566677777777777666321  22344 566666666677777777766665

>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=97.27  E-value=0.0064  Score=50.51  Aligned_cols=72  Identities=10%  Similarity=0.045  Sum_probs=36.6

Q ss_pred             CCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcHHHH
Q 043124          139 EPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPNAVIW  213 (331)
Q Consensus       139 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~~~~  213 (331)
                      +.+..+|..+...+...|++++|...+++....   .|+...|..+...+.-.|++++|.+.+++ +.+.|...+|
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L---n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t~  346 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL---EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANTL  346 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcChH
Confidence            334455554444444455666666655555522   24444455555555555666666555543 2344554443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.23  E-value=0.0047  Score=41.37  Aligned_cols=65  Identities=6%  Similarity=-0.135  Sum_probs=54.2

Q ss_pred             CcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC-------CCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          208 PNAVIWGALLGGCKLHRNLEIAHIAVNELMILE-------PNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       208 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .+..-+..+...+...++++.|...++.+++..       +....++..|+.+|.+.|+++.|..++++..+
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            345566778888999999999999999998832       33456788999999999999999999999874

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=97.22  E-value=0.0025  Score=43.91  Aligned_cols=64  Identities=9%  Similarity=-0.050  Sum_probs=32.7

Q ss_pred             CcHHHHHHHHHHHhhcCCHHH---HHHHHHHHHhcC-C-CCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          208 PNAVIWGALLGGCKLHRNLEI---AHIAVNELMILE-P-NNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       208 p~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      |+..+--.+..++++..+...   ++.+++...+.+ | ........|..++.+.|++++|.+.++.+.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL  101 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLL  101 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444444445555555544433   555555555543 3 223333445555666666666666666555

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.08  E-value=0.035  Score=40.78  Aligned_cols=103  Identities=16%  Similarity=0.135  Sum_probs=55.8

Q ss_pred             HHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHH
Q 043124           85 MYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRR  164 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  164 (331)
                      .....|+++.|.++.+.+  .+...|..|.....+.|+++-|.+.|.+..+         +..+.-.|...|+.+.-..+
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            344566666666665554  3455666666666666666666666666532         22233334445555554444


Q ss_pred             HHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 043124          165 FLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK  205 (331)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  205 (331)
                      -+....+ |      -++.-...+.-.|+++++.+++.+.+
T Consensus        83 a~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           83 QNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            4433311 1      13334444556666666666666665

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.00  E-value=0.03  Score=39.28  Aligned_cols=92  Identities=4%  Similarity=-0.037  Sum_probs=64.5

Q ss_pred             CCCcHHHHHHHHHHHhhcCC---HHHHHHHHHHHHhcCCC-CcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCc
Q 043124          206 FQPNAVIWGALLGGCKLHRN---LEIAHIAVNELMILEPN-NSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPG  281 (331)
Q Consensus       206 ~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  281 (331)
                      -.|+..+--.+..++++..+   ..++..+++.+....|. .......|..++.+.|++++|.++.+.+.+         
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~---------  105 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE---------  105 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH---------
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh---------
Confidence            35666666666677776664   34677777777776663 344445677888888888888888888773         


Q ss_pred             cceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhcCcc
Q 043124          282 SSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLASYV  324 (331)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~g~~  324 (331)
                                        ..|++..+......+-+.+.+.|++
T Consensus       106 ------------------~eP~n~QA~~Lk~~Ie~~i~kdGli  130 (144)
T 1y8m_A          106 ------------------HERNNKQVGALKSMVEDKIQKETLK  130 (144)
T ss_dssp             ------------------TCCCCHHHHHHHHHHHHHHHHTTTT
T ss_pred             ------------------cCCCcHHHHHHHHHHHHHHHHhchh
Confidence                              4577777777777777777777653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.88  E-value=0.0054  Score=48.95  Aligned_cols=84  Identities=13%  Similarity=0.132  Sum_probs=67.1

Q ss_pred             HHHHHHHHHh-CCCCCc---HHHHHHHHHHHhh-----cCCHHHHHHHHHHHHhcCCCC-cchHHHHHHHHHhc-CCchH
Q 043124          194 LEDALELIRS-SKFQPN---AVIWGALLGGCKL-----HRNLEIAHIAVNELMILEPNN-SGYCTLLLNMYAEV-SRWAE  262 (331)
Q Consensus       194 ~~~a~~~~~~-~~~~p~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  262 (331)
                      ...|...+++ +.+.|+   ...|..+...|..     .|+.++|.+.|++++++.|+. ...+....+.+++. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            3455666665 345666   5677777777877     499999999999999999975 88888899999884 99999


Q ss_pred             HHHHHHHHHhcCCCC
Q 043124          263 VTKIRVAMKELGIEK  277 (331)
Q Consensus       263 a~~~~~~m~~~~~~~  277 (331)
                      +.+.+++........
T Consensus       259 a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          259 FDEALDRALAIDPES  273 (301)
T ss_dssp             HHHHHHHHHHCCGGG
T ss_pred             HHHHHHHHHcCCCCC
Confidence            999999999877663

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.81  E-value=0.0091  Score=42.73  Aligned_cols=88  Identities=15%  Similarity=-0.022  Sum_probs=57.2

Q ss_pred             cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcC---CHHHHHHHHHhCC-CC-C--cHHHHHHHHHHHhhcCCHHHH
Q 043124          157 LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAG---LLEDALELIRSSK-FQ-P--NAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       157 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~-~~-p--~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      ....+.+.|.+.. ..+ .++..+.-.+..++++.+   +.++++.++++.- .. |  ....+..+.-++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~-~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEK-AAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHH-HTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHH-ccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            3445555555554 222 245555555666677766   4556766666531 12 4  244555666678899999999


Q ss_pred             HHHHHHHHhcCCCCcch
Q 043124          230 HIAVNELMILEPNNSGY  246 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~  246 (331)
                      .++++.+++.+|++..+
T Consensus        91 ~~y~~~lL~ieP~n~QA  107 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQA  107 (152)
T ss_dssp             HHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHhcCCCCHHH
Confidence            99999999999987766

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.71  E-value=0.017  Score=38.49  Aligned_cols=73  Identities=11%  Similarity=0.010  Sum_probs=52.0

Q ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHhCC---------CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHH
Q 043124          178 VEHYGCMVDLLSKAGLLEDALELIRSSK---------FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCT  248 (331)
Q Consensus       178 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  248 (331)
                      ..-+-.|...+.+.|++..|...|+..-         -.+....+..+..++.+.|+++.|...++++++..|++..+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~   84 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHh
Confidence            3344456666777777777766665310         1234677888888899999999999999999999999876644


Q ss_pred             HH
Q 043124          249 LL  250 (331)
Q Consensus       249 ~l  250 (331)
                      .+
T Consensus        85 n~   86 (104)
T 2v5f_A           85 NL   86 (104)
T ss_dssp             HH
T ss_pred             hH
Confidence            43

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.67  E-value=0.014  Score=38.09  Aligned_cols=68  Identities=4%  Similarity=-0.060  Sum_probs=44.5

Q ss_pred             CCchhhHHHHHHHHHhCCC---hhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhC
Q 043124            3 ARDIISWTTMITCYSQNKQ---FREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIG   71 (331)
Q Consensus         3 ~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   71 (331)
                      ++|...+..+..++...++   .++|..+|++..+.. +-+......+...+...|++++|+..|+.+++..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4455666666666654443   577777777777664 3355666666677777777777777777777654

>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=96.36  E-value=0.06  Score=37.23  Aligned_cols=91  Identities=3%  Similarity=-0.049  Sum_probs=61.0

Q ss_pred             CCCCcHHHHHHHHHHHhhcCC---HHHHHHHHHHHHhcCCC-CcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCC
Q 043124          205 KFQPNAVIWGALLGGCKLHRN---LEIAHIAVNELMILEPN-NSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCP  280 (331)
Q Consensus       205 ~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  280 (331)
                      +-.|+..+--.+..++++..+   ..+++.+++++.+.+|. .......|..++.+.|++++|.+..+.+.         
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL---------  105 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF---------  105 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH---------
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH---------
Confidence            334566665566666666654   34677777777776663 34555667778888888888888888776         


Q ss_pred             ccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHhcC
Q 043124          281 GSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKLAS  322 (331)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~g  322 (331)
                                        +..|++..+......|-+.+.+.|
T Consensus       106 ------------------~~eP~N~QA~~Lk~~Ie~ki~kd~  129 (134)
T 3o48_A          106 ------------------EHERNNKQVGALKSMVEDKIQKEE  129 (134)
T ss_dssp             ------------------TTCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ------------------hhCCCCHHHHHHHHHHHHHHHhhc
Confidence                              345777777777777777766554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.30  E-value=1.2e-07  Score=80.19  Aligned_cols=241  Identities=12%  Similarity=0.113  Sum_probs=146.9

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      ..|+.|.+++...+...+|++.|-+      .-|+..|..++.++.+.|.++.-..++....+..  .+..+=+.|+-+|
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ay  126 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL  126 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHH
T ss_pred             cHHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHH
Confidence            3477888888888888888765532      2266778889999999999998888886655542  3455567889999


Q ss_pred             HhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC--------------------CCCcHHHHH
Q 043124           87 AKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN--------------------VEPNGVTFI  146 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------------~~p~~~~~~  146 (331)
                      ++.+++.+-++++   ..||..-...++.-|...|.++.|.-+|..+....                    -.-+..||-
T Consensus       127 Ak~~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWK  203 (624)
T 3lvg_A          127 AKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWK  203 (624)
T ss_dssp             HTSCSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHH
T ss_pred             HhhCcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHH
Confidence            9999877654332   23565556666777777777777766665542211                    112445566


Q ss_pred             HHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CC-CCCcHHHHHHHHHHHhhcC
Q 043124          147 SVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SK-FQPNAVIWGALLGGCKLHR  224 (331)
Q Consensus       147 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~-~~p~~~~~~~l~~~~~~~~  224 (331)
                      -+-.+|...+.+.-|...--.+. -   .++  ....++..|-..|.+++-+.+++. +| -+.....|+-|.-.|++- 
T Consensus       204 eV~~ACvd~~EfrLAqicGLniI-v---had--eL~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaILYsKY-  276 (624)
T 3lvg_A          204 EVCFACVDGKEFRLAQMCGLHIV-V---HAD--ELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF-  276 (624)
T ss_dssp             HHTHHHHHSCTTTTTTHHHHHHH-C---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHHHHSS-
T ss_pred             HHHHHHhCchHHHHHHHhcchhc-c---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHHHHhc-
Confidence            56666666666555544333333 1   111  122344556666777777777764 44 245677777777666655 


Q ss_pred             CHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHH
Q 043124          225 NLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAM  270 (331)
Q Consensus       225 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  270 (331)
                      ++++..+.++-... .-+ .   --++++|.+..-|.++.-++..-
T Consensus       277 ~PeKlmEHlklf~s-riN-i---pKviracE~ahLW~ElvfLY~~y  317 (624)
T 3lvg_A          277 KPQKMREHLELFWS-RVN-I---PKVLRAAEQAHLWAELVFLYDKY  317 (624)
T ss_dssp             CTTHHHHHHTTSSS-SSC-C---TTTHHHHTTTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH-hcc-H---HHHHHHHHHHhhHHHHHHHHhcc
Confidence            33433333322222 111 1   12677888888888887766643

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.29  E-value=0.2  Score=36.72  Aligned_cols=129  Identities=13%  Similarity=0.075  Sum_probs=90.7

Q ss_pred             HHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHH
Q 043124           49 SACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALA  128 (331)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  128 (331)
                      ......|+++.|.++.+.+      .+...|..|.+.....|+++-|++.|.+...     +..+.-.|...|+.+...+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS-----FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----HHHHHHHHHHhCCHHHHHH
Confidence            4455779999998887654      3677899999999999999999999998875     5556666677788877776


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH-HHcCCHHHHHHHHHhCC
Q 043124          129 MFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL-SKAGLLEDALELIRSSK  205 (331)
Q Consensus       129 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~  205 (331)
                      +-+.....| .     ++.....+.-.|+++++.++|.+.. +   .|.       .-.+ ...|..+.|.++.++++
T Consensus        82 la~iA~~~g-~-----~n~af~~~l~lGdv~~~i~lL~~~~-r---~~e-------A~~~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           82 MQNIAQTRE-D-----FGSMLLNTFYNNSTKERSSIFAEGG-S---LPL-------AYAVAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHTT-C---HHH-------HHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHHHCC-C---hHH-------HHHHHHHcCcHHHHHHHHHHhC
Confidence            666655554 1     3444455667899999999987765 1   121       1112 23566777888877765

>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=95.82  E-value=0.17  Score=35.93  Aligned_cols=50  Identities=12%  Similarity=0.055  Sum_probs=27.1

Q ss_pred             CCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Q 043124           90 GSLDRSLLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVE  139 (331)
Q Consensus        90 g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  139 (331)
                      ++.++|.++|+.+.+.   =...|-.....-.+.|+...|.+++.+.+..+..
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            5555555555544321   1234444455555666666677776666665533

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.62  E-value=0.11  Score=41.62  Aligned_cols=62  Identities=15%  Similarity=0.170  Sum_probs=31.3

Q ss_pred             hhHHHHHHHHHHhh-----CCHHHHHHHHhhcCC--C--ChhhHHHHHHHHHhC-CCHHHHHHHHHHHHHcC
Q 043124           76 VYIGSALVDMYAKC-----GSLDRSLLVFFKLRE--K--NLFCWNSIIEGLAVH-GFAHEALAMFDRMIYEN  137 (331)
Q Consensus        76 ~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~--~--~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~  137 (331)
                      ...|..|...|.+.     |+.++|.++|++..+  |  +..++......++.. |+.+++.+.+++.++..
T Consensus       199 GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~  270 (301)
T 3u64_A          199 GAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCC
Confidence            33455555555542     555555555554432  2  244555555555553 55555555555555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.54  E-value=0.2  Score=34.42  Aligned_cols=89  Identities=16%  Similarity=-0.006  Sum_probs=51.8

Q ss_pred             cHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHH---HHHHHHhCC-CC-C--cHHHHHHHHHHHhhcCCHHHH
Q 043124          157 LVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLED---ALELIRSSK-FQ-P--NAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       157 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~-~~-p--~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      ....+.+.|...... + .++..+--.+..++++..+...   ++.+++++- .. |  .......|.-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            344444455544421 2 2444444445566666655544   556665532 12 3  123344455568888888888


Q ss_pred             HHHHHHHHhcCCCCcchH
Q 043124          230 HIAVNELMILEPNNSGYC  247 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~~  247 (331)
                      .++++.+++..|++..+.
T Consensus        94 ~~~~~~lL~~eP~n~QA~  111 (126)
T 1nzn_A           94 LKYVRGLLQTEPQNNQAK  111 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHhCCCCHHHH
Confidence            888888888888876663

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.26  E-value=0.088  Score=48.29  Aligned_cols=53  Identities=11%  Similarity=-0.106  Sum_probs=49.9

Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      .|...|+++.|.++.+++....|.+..+|..|..+|...|+++.|+-.++-+.
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            37789999999999999999999999999999999999999999999999874

>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=95.11  E-value=0.089  Score=44.49  Aligned_cols=66  Identities=17%  Similarity=0.123  Sum_probs=56.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH-----hcCCCCC
Q 043124          213 WGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK-----ELGIEKR  278 (331)
Q Consensus       213 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~  278 (331)
                      ...++.++...|+.+++...++.+...+|.+...+..++.++.+.|+..+|++.|++..     +.|+.|.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~  244 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  244 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCC
Confidence            34466677889999999999999999999999999999999999999999999998874     3588877

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.08  E-value=0.0072  Score=51.78  Aligned_cols=116  Identities=11%  Similarity=0.039  Sum_probs=85.8

Q ss_pred             CCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 043124            2 PARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA   81 (331)
Q Consensus         2 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   81 (331)
                      ...|...|..+|....+.|.+++-+..+.-.++..-.|  ..=+.|+.+|++.++..+-.+++       ..|+..-...
T Consensus        79 kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk~~rL~elEefl-------~~~N~A~iq~  149 (624)
T 3lvg_A           79 KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAKTNRLAELEEFI-------NGPNNAHIQQ  149 (624)
T ss_dssp             CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHTSCSSSTTTSTT-------SCCSSSCTHH
T ss_pred             hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHhhCcHHHHHHHH-------cCCCcccHHH
Confidence            35677889999999999999999999887666553333  44458999999999987766554       2467666777


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCC------------------------CChhhHHHHHHHHHhCCCHHHH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLRE------------------------KNLFCWNSIIEGLAVHGFAHEA  126 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~------------------------~~~~~~~~li~~~~~~~~~~~a  126 (331)
                      ..+-|...|.++.|.-+|..+..                        .++.+|-.+-.+|...+.+.-|
T Consensus       150 VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLA  218 (624)
T 3lvg_A          150 VGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLA  218 (624)
T ss_dssp             HHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTT
T ss_pred             HHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHH
Confidence            88888888888888887776652                        2566788877777766655433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.94  E-value=0.59  Score=32.53  Aligned_cols=66  Identities=9%  Similarity=0.085  Sum_probs=45.2

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT  175 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  175 (331)
                      ...+..+..+...|+-++-.+++..+... .+|++.....+..+|.+.|+..+|..++.+.- +.|++
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 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEAC-KKGEK  157 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCH
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHH-HhhhH
Confidence            34455666777778878777777775443 36777777777788888888888887777776 44543

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=94.46  E-value=0.3  Score=31.85  Aligned_cols=63  Identities=14%  Similarity=0.095  Sum_probs=50.6

Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      +.-+..+-++.+...++.|++....+.+++|.+.+++..|.++|+.++.+.+..  ..+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            456777888888888889999999999999999999999999999988655433  446776654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.28  E-value=0.97  Score=32.65  Aligned_cols=61  Identities=5%  Similarity=-0.124  Sum_probs=39.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCCH-------hhHHHHHHHHHccCCchHHHHHHHHHHH
Q 043124            9 WTTMITCYSQNKQFREALDAFNEMKNSG-ISPDQ-------VTMATVLSACAHLGALDLGREIHLYVMQ   69 (331)
Q Consensus         9 ~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~   69 (331)
                      +-.=++.+...+.++.|+-+.+.+.... ..|+.       .++..+..++...|++..|...|+++++
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            3344667777888888877766654321 12221       2455666777788888888888887654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.06  E-value=1.2  Score=41.93  Aligned_cols=154  Identities=12%  Similarity=-0.036  Sum_probs=72.8

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHH--HHHHHHHHc
Q 043124          114 IEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYG--CMVDLLSKA  191 (331)
Q Consensus       114 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~  191 (331)
                      ...++-.|+.+....++..+.+.. .-+..-+..+.-++...|+.+.+..+.+.+....  .|....-.  ++.-+|+..
T Consensus       497 Gli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~--dp~vRygaa~alglAyaGT  573 (963)
T 4ady_A          497 GLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLASD--ESLLRYGGAFTIALAYAGT  573 (963)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS--CHHHHHHHHHHHHHHTTTS
T ss_pred             hhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHhcCC
Confidence            334455677766667776665532 1112222223333446677777777777766321  22222221  233456677


Q ss_pred             CCHHHHHHHHHhCCCCC--cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc-CCCCcchHHHHHHHHHhcCCc-hHHHHHH
Q 043124          192 GLLEDALELIRSSKFQP--NAVIWGALLGGCKLHRNLEIAHIAVNELMIL-EPNNSGYCTLLLNMYAEVSRW-AEVTKIR  267 (331)
Q Consensus       192 ~~~~~a~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~-~~a~~~~  267 (331)
                      |+.....+++..+.-.+  ++.....+.-++...|+.+.+.++++.+... +|. ...-..+..+....|.. .++.+++
T Consensus       574 Gn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~d~~-VR~gAalALGli~aGn~~~~aid~L  652 (963)
T 4ady_A          574 GNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSHNAH-VRCGTAFALGIACAGKGLQSAIDVL  652 (963)
T ss_dssp             CCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCSCHH-HHHHHHHHHHHHTSSSCCHHHHHHH
T ss_pred             CCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcCCHH-HHHHHHHHHHHhccCCCcHHHHHHH
Confidence            77766666666543222  2222222222344455555555555544432 221 22222333333334433 4566666


Q ss_pred             HHHH
Q 043124          268 VAMK  271 (331)
Q Consensus       268 ~~m~  271 (331)
                      ..+.
T Consensus       653 ~~L~  656 (963)
T 4ady_A          653 DPLT  656 (963)
T ss_dssp             HHHH
T ss_pred             HHHc
Confidence            6664

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.90  E-value=2.2  Score=36.66  Aligned_cols=184  Identities=11%  Similarity=0.053  Sum_probs=111.6

Q ss_pred             CChhHHHHHHHHHHHC-----CCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH----HHHHhhC
Q 043124           20 KQFREALDAFNEMKNS-----GISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV----DMYAKCG   90 (331)
Q Consensus        20 ~~~~~a~~~~~~m~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~g   90 (331)
                      |+++.|++.+..+.+.     +..-+......++..|...|+++...+.+..+.+..-.. ......++    .......
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcCC
Confidence            6788888877666542     223345567778888889999988877776554432222 12222333    3333333


Q ss_pred             CHH--HHHHHHhhcCCC---C-------hhhHHHHHHHHHhCCCHHHHHHHHHHHHHc--CCCCc---HHHHHHHHHHHh
Q 043124           91 SLD--RSLLVFFKLREK---N-------LFCWNSIIEGLAVHGFAHEALAMFDRMIYE--NVEPN---GVTFISVLSACT  153 (331)
Q Consensus        91 ~~~--~a~~~~~~~~~~---~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~---~~~~~~ll~~~~  153 (331)
                      ..+  .-..+.+.+..-   -       ......|...+...|++.+|.+++.++...  |....   ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            322  233344433321   1       123456778888899999999999887642  22222   245666778888


Q ss_pred             ccCcHHHHHHHHHhhhh---cCCCCCc--HhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 043124          154 HAGLVEEGRRRFLSMTC---GYSITPE--VEHYGCMVDLLSKAGLLEDALELIRSS  204 (331)
Q Consensus       154 ~~~~~~~a~~~~~~~~~---~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  204 (331)
                      ..+++..|..+++++..   .....|+  ...+...+..+...+++.+|...|.+.
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            89999999988888642   1111222  345566677777888888887765544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.53  E-value=6  Score=38.65  Aligned_cols=24  Identities=13%  Similarity=0.058  Sum_probs=15.3

Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcC
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      -.+..+|...|++++|.+.|++..
T Consensus       846 yl~g~~~L~~ge~~~A~~~F~kaa  869 (1139)
T 4fhn_B          846 YLKALIYLKSKEAVKAVRCFKTTS  869 (1139)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTCC
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHh
Confidence            345566666777777777776553

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=92.92  E-value=1.6  Score=34.35  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=68.3

Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc----HhHHHHHHHHHHH
Q 043124          115 EGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE----VEHYGCMVDLLSK  190 (331)
Q Consensus       115 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~  190 (331)
                      ..+.+.|+.+++++....-++.. |-|...-..++..+|-.|+++.|.+-++...+.   .|+    ...|..+|.+   
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~a---   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKA---   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHH---
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHH---
Confidence            34556777788877777766664 556666677777788888888887777776622   333    2233333332   


Q ss_pred             cCCHHHH-HHHHHh--CC--CCCcHHHHHHHHHH--HhhcCCHHHHHHHHHHHHhcCCCCcc
Q 043124          191 AGLLEDA-LELIRS--SK--FQPNAVIWGALLGG--CKLHRNLEIAHIAVNELMILEPNNSG  245 (331)
Q Consensus       191 ~~~~~~a-~~~~~~--~~--~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~p~~~~  245 (331)
                          +.. .++|.-  .+  +.....-...++.+  ....|+.++|.++-..+.+..|....
T Consensus        78 ----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G  135 (273)
T 1zbp_A           78 ----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  135 (273)
T ss_dssp             ----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             ----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCC
Confidence                111 122321  11  11122233444444  34567888888887777776665443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=92.87  E-value=0.63  Score=39.26  Aligned_cols=59  Identities=8%  Similarity=-0.062  Sum_probs=39.0

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      ...++..+...|+++++...+..+.... +.+...+..+|.++.+.|+..+|++.|+.+.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r  232 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVK  232 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445566666777777777776666653 4466677777777777777777777776554

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=92.54  E-value=1.4  Score=28.61  Aligned_cols=89  Identities=13%  Similarity=0.063  Sum_probs=66.7

Q ss_pred             cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043124           54 LGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRM  133 (331)
Q Consensus        54 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  133 (331)
                      ....++|..|-+.+...+.  ...+--+-+..+.+.|++++|..+.+.+--||...|-+|..  .+.|..+++..-+.++
T Consensus        19 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            3456888888888877653  33333334556788999999999999999999999987754  5788888888888888


Q ss_pred             HHcCCCCcHHHHHH
Q 043124          134 IYENVEPNGVTFIS  147 (331)
Q Consensus       134 ~~~~~~p~~~~~~~  147 (331)
                      ...| .|....|..
T Consensus        95 a~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           95 GGSS-DPALADFAA  107 (115)
T ss_dssp             HTCS-SHHHHHHHH
T ss_pred             HhCC-CHHHHHHHH
Confidence            8776 566666654

>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=92.39  E-value=0.87  Score=31.48  Aligned_cols=63  Identities=14%  Similarity=0.099  Sum_probs=51.2

Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      |.-+..+-++.+...++.|++......+++|.+.+|+..|.++|+-++.+.+.  ...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~--~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCC--chhhHHHHHH
Confidence            45567777888888889999999999999999999999999999999866543  3556776654

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=92.26  E-value=1.5  Score=28.47  Aligned_cols=89  Identities=16%  Similarity=0.131  Sum_probs=65.7

Q ss_pred             cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043124           54 LGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRM  133 (331)
Q Consensus        54 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  133 (331)
                      ....++|..|-+.+...+.  ...+--+-+..+.+.|++++|..+.+.+--||...|-+|..  .+.|..+++..-+.++
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   95 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRL   95 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            3466888888888777653  33333334556788999999999999999999999988754  5678888888888888


Q ss_pred             HHcCCCCcHHHHHH
Q 043124          134 IYENVEPNGVTFIS  147 (331)
Q Consensus       134 ~~~~~~p~~~~~~~  147 (331)
                      ...| .|....|..
T Consensus        96 a~sg-~p~~q~Fa~  108 (116)
T 2p58_C           96 ARSQ-DPRIQTFVN  108 (116)
T ss_dssp             TTCC-CHHHHHHHH
T ss_pred             HhCC-CHHHHHHHH
Confidence            7776 566666553

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=92.18  E-value=1.6  Score=28.50  Aligned_cols=63  Identities=16%  Similarity=0.177  Sum_probs=48.2

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124           21 QFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus        21 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++++-++... .....+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            455677778888888888899999889999999999999999888776653 334556766554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.18  E-value=1.5  Score=40.36  Aligned_cols=122  Identities=11%  Similarity=-0.056  Sum_probs=78.4

Q ss_pred             HHHHHHHHccCC-chHHHHHHHHHHHhCCCCchhH--HHHHHHHHHhhCC-HHHHHHHHhhc-----------CCCChh-
Q 043124           45 ATVLSACAHLGA-LDLGREIHLYVMQIGFDIDVYI--GSALVDMYAKCGS-LDRSLLVFFKL-----------REKNLF-  108 (331)
Q Consensus        45 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~-~~~a~~~~~~~-----------~~~~~~-  108 (331)
                      ..++..+...++ .+.|..+++++.+..  |...+  ...++..+...++ --+|.+++.+.           ...+.. 
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            455666666666 588999999988874  33332  2233333322221 12233333322           222221 


Q ss_pred             ---------hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhh
Q 043124          109 ---------CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMT  169 (331)
Q Consensus       109 ---------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  169 (331)
                               ..+.-...+...|+++-|+++-++.... .|-+-.+|..|..+|...|+++.|+-.++.+-
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                     1222244567789999999999999887 24557899999999999999999999999873

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.85  E-value=8.7  Score=36.34  Aligned_cols=184  Identities=10%  Similarity=0.016  Sum_probs=106.8

Q ss_pred             hHHHHHHHHHHHCCCCCCHh--hHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHH--HHHHhhCCHHHHHHH
Q 043124           23 REALDAFNEMKNSGISPDQV--TMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALV--DMYAKCGSLDRSLLV   98 (331)
Q Consensus        23 ~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~   98 (331)
                      +++.+.+..+....- +...  .--.|...+...|+.+....++..+.+..   +..+...+.  -++.-.|+.+.+..+
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 IEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDL  546 (963)
T ss_dssp             HHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHH
T ss_pred             HHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHH
Confidence            456666666665421 1111  11233444567788887788877766532   223333333  344466888888777


Q ss_pred             HhhcCC-CChhh-H---HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC
Q 043124           99 FFKLRE-KNLFC-W---NSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYS  173 (331)
Q Consensus        99 ~~~~~~-~~~~~-~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  173 (331)
                      .+.+.. .+... |   .++..+|+..|+.....+++..+.+.. ..+......+.-++...|+.+.+.++++.+.+.. 
T Consensus       547 i~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-  624 (963)
T 4ady_A          547 ITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-  624 (963)
T ss_dssp             HHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-
Confidence            777653 33332 2   345567888999888888999888652 2333333333344555677777788887776322 


Q ss_pred             CCCcHhHHHHHHHHHHHcCCH-HHHHHHHHhCCCCCcHHHH
Q 043124          174 ITPEVEHYGCMVDLLSKAGLL-EDALELIRSSKFQPNAVIW  213 (331)
Q Consensus       174 ~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~p~~~~~  213 (331)
                       .|.+..-..+..+....|.. .++++.+..+.-.+|..+-
T Consensus       625 -d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vr  664 (963)
T 4ady_A          625 -NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVR  664 (963)
T ss_dssp             -CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHH
T ss_pred             -CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHH
Confidence             45555555555555555554 5677777766544554443

>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=91.80  E-value=2.5  Score=30.00  Aligned_cols=110  Identities=8%  Similarity=-0.024  Sum_probs=69.7

Q ss_pred             CCHhhHHHHHHHHHccCCc------hHHHHHHHHHHHhCCCCch-hHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHH
Q 043124           39 PDQVTMATVLSACAHLGAL------DLGREIHLYVMQIGFDIDV-YIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWN  111 (331)
Q Consensus        39 p~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  111 (331)
                      .|..+|-..+....+.|++      ++.+++|+++... ++|+. ..|...+..+.+                      .
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIr----------------------Y   67 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVR----------------------F   67 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHH----------------------H
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHH----------------------H
Confidence            3556666666666666777      7777888877776 45542 122222222221                      1


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC
Q 043124          112 SIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP  176 (331)
Q Consensus       112 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  176 (331)
                      ++.   ...++.++|.++|+.+++.+-.- ...+......-.+.|+...|.+++.... ..+..|
T Consensus        68 A~~---~ei~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~Ai-G~~~k~  127 (161)
T 4h7y_A           68 AEL---KAIQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAV-ERGAVP  127 (161)
T ss_dssp             HHH---HHHHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCBC
T ss_pred             HHH---HHhcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHh-ccCCCc
Confidence            111   12268889999999997764333 6666666677788999999999999988 444333

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=91.43  E-value=7.8  Score=34.90  Aligned_cols=50  Identities=10%  Similarity=-0.011  Sum_probs=23.8

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHH
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYV   67 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~   67 (331)
                      +..+.+.+++...+..+..     .+.+...-+....+....|+...|......+
T Consensus        79 l~~l~~~~~w~~~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~l  128 (618)
T 1qsa_A           79 VNELARREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKEL  128 (618)
T ss_dssp             HHHHHHTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Confidence            4455556666655553332     1234444444455555556554444433333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.37  E-value=1.7  Score=31.40  Aligned_cols=55  Identities=15%  Similarity=-0.011  Sum_probs=30.8

Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcCC-----CCh-------hhHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLRE-----KNL-------FCWNSIIEGLAVHGFAHEALAMFDRMIY  135 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~~-----~~~-------~~~~~li~~~~~~~~~~~a~~~~~~m~~  135 (331)
                      .-+..+...|.++.|+-+...+..     +++       .++..+..++...|++..|...|++.++
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            335556666666666665554331     221       1445556666666666666666666543

>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=90.85  E-value=6.6  Score=33.05  Aligned_cols=23  Identities=4%  Similarity=-0.146  Sum_probs=11.5

Q ss_pred             HHHHHHHHHccCCchHHHHHHHH
Q 043124           44 MATVLSACAHLGALDLGREIHLY   66 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~   66 (331)
                      ...|...|.+.|+.++..+++..
T Consensus        22 ~~~l~~~~~~~~~~~~~~~~~~~   44 (394)
T 3txn_A           22 ILQQGELYKQEGKAKELADLIKV   44 (394)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34445555555555555554443

>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=90.19  E-value=3.4  Score=28.63  Aligned_cols=45  Identities=7%  Similarity=-0.040  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC
Q 043124           59 LGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        59 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      +..+-++.+....+-|++.+..+.+++|.+.+++.-|..+|+.++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334444444444555555555566666666666666666655554

>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=89.97  E-value=4.1  Score=30.50  Aligned_cols=55  Identities=7%  Similarity=0.001  Sum_probs=35.4

Q ss_pred             CCHHHHHHHHHHHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          224 RNLEIAHIAVNELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +....+..+|..|..  ++-..+.+|......+...|++++|..+|+.-.+++-+|.
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            335566666666655  4455566666677777777777777777777666655554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.68  E-value=7  Score=38.18  Aligned_cols=191  Identities=6%  Similarity=-0.031  Sum_probs=121.3

Q ss_pred             HHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC--------------------
Q 043124           80 SALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVE--------------------  139 (331)
Q Consensus        80 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--------------------  139 (331)
                      ..++..+...|..+-+.++..-.. .+......++.++...|++++|.+.|++.-. |+.                    
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~-~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~  893 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLN-SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYH  893 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcc-CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccccc
Confidence            346666777888888877665554 4555556788899999999999999987521 110                    


Q ss_pred             ---CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC-c--HhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCcHHH
Q 043124          140 ---PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP-E--VEHYGCMVDLLSKAGLLEDALELIRSSK-FQPNAVI  212 (331)
Q Consensus       140 ---p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~  212 (331)
                         .-..-|..++..+.+.+.++.+.++-....+..+-.+ +  ...|..+.+.+...|++++|...+-.++ ..--...
T Consensus       894 ~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~c  973 (1139)
T 4fhn_B          894 HQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSC  973 (1139)
T ss_dssp             SCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHH
T ss_pred             ccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHH
Confidence               1123467788888888999988888777663322121 1  2368889999999999999988886553 1112345


Q ss_pred             HHHHHHHHhhcCCHH------------HHHHHHHHHH-hc-CCCC-cchHHHHHHHHHhcCCchHHH-HHHHHHHh
Q 043124          213 WGALLGGCKLHRNLE------------IAHIAVNELM-IL-EPNN-SGYCTLLLNMYAEVSRWAEVT-KIRVAMKE  272 (331)
Q Consensus       213 ~~~l~~~~~~~~~~~------------~a~~~~~~~~-~~-~p~~-~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~  272 (331)
                      ...|+..++..|..+            +..+++..-. .. .+.+ +.+|..|-.-+...|++..|- -+|+...+
T Consensus       974 Lr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          974 LLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            566666666555544            3333433222 12 2332 345666666667777777654 45555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.20  E-value=1.3  Score=34.80  Aligned_cols=55  Identities=24%  Similarity=0.288  Sum_probs=28.5

Q ss_pred             HHHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC
Q 043124          188 LSKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPN  242 (331)
Q Consensus       188 ~~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  242 (331)
                      +.+.|++++|++.... ++-+| |...=..|+..++-.|++++|.+-++-..+++|.
T Consensus         7 ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            3455555555555442 33333 3333344445555566666666666555555555

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.49  E-value=11  Score=30.91  Aligned_cols=22  Identities=18%  Similarity=0.294  Sum_probs=12.2

Q ss_pred             hHHHHHHHHHhCCChhHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAF   29 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~   29 (331)
                      +|-++..-|.+.+++++|++++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL   58 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDIL   58 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHH
Confidence            3445555555666666655544

>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=86.81  E-value=5.3  Score=27.59  Aligned_cols=17  Identities=18%  Similarity=-0.097  Sum_probs=7.1

Q ss_pred             HHHHHcCCHHHHHHHHH
Q 043124          186 DLLSKAGLLEDALELIR  202 (331)
Q Consensus       186 ~~~~~~~~~~~a~~~~~  202 (331)
                      -++.+.|++++|.+..+
T Consensus        86 vg~yklgdY~~Ar~y~d  102 (134)
T 3o48_A           86 IGCYKLGEYSMAKRYVD  102 (134)
T ss_dssp             HHHHHHTCHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHH
Confidence            33444444444444443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=86.06  E-value=12  Score=30.23  Aligned_cols=25  Identities=28%  Similarity=0.275  Sum_probs=15.4

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHH
Q 043124          106 NLFCWNSIIEGLAVHGFAHEALAMF  130 (331)
Q Consensus       106 ~~~~~~~li~~~~~~~~~~~a~~~~  130 (331)
                      ++..+..+...|.+.|++.+|...|
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            4555666666666666666666544

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=85.82  E-value=7.6  Score=27.59  Aligned_cols=50  Identities=10%  Similarity=-0.051  Sum_probs=37.2

Q ss_pred             HHHHHHHHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          229 AHIAVNELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       229 a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +..+|..+..  ++-..+.+|......+...|++++|..+|+.-.+++-+|.
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~  135 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPR  135 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            6677777766  5566677778888888888888888888888777766654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.61  E-value=3.9  Score=34.92  Aligned_cols=97  Identities=10%  Similarity=-0.060  Sum_probs=70.8

Q ss_pred             hHHHHHHHHHHhhCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc---CCCCcHHHHH-
Q 043124           77 YIGSALVDMYAKCGSLDRSLLVFFKLREK------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE---NVEPNGVTFI-  146 (331)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~-  146 (331)
                      .++..+...|.+.|++++|.+.|.++...      -+..+-..+..+...++|..+...++++...   +-.|+..... 
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            36778999999999999999999988642      3457888889999999999999999987643   3233332211 


Q ss_pred             -HHHHHHhccCcHHHHHHHHHhhhhcCC
Q 043124          147 -SVLSACTHAGLVEEGRRRFLSMTCGYS  173 (331)
Q Consensus       147 -~ll~~~~~~~~~~~a~~~~~~~~~~~~  173 (331)
                       .-...+...+++..|.+.|-+......
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t~~  239 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLATFT  239 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhccCC
Confidence             122234567899999888888764444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.59  E-value=15  Score=30.01  Aligned_cols=168  Identities=11%  Similarity=0.023  Sum_probs=101.2

Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHH----HHHHHcCCCCcHHHHHHHHHHHh
Q 043124           78 IGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMF----DRMIYENVEPNGVTFISVLSACT  153 (331)
Q Consensus        78 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~~~~p~~~~~~~ll~~~~  153 (331)
                      .|.++..=|.+.+++++|.+++..-           ...+.+.|+...|-++-    +...+.++++|......++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            4455666678888888888875433           23455566665554443    45556678888888777777766


Q ss_pred             ccCcHH-HHHHHHHhhhh---cCC--CCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHH
Q 043124          154 HAGLVE-EGRRRFLSMTC---GYS--ITPEVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLE  227 (331)
Q Consensus       154 ~~~~~~-~a~~~~~~~~~---~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  227 (331)
                      .....+ .=.++.+++.+   +.|  ..-++.....+...|.+.+++.+|..-|- .+..+....+..++..+...+.  
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~--  182 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDE--  182 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSC--
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcC--
Confidence            554311 11122222221   112  23356666778888999999999988774 3444444666555555444332  


Q ss_pred             HHHHHHHHHHhcCCCCcchH-HHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          228 IAHIAVNELMILEPNNSGYC-TLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       228 ~a~~~~~~~~~~~p~~~~~~-~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                                   |.....| ...+--|.-.++...|..+++.+.+
T Consensus       183 -------------~~e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          183 -------------SHTAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             -------------GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------------CccHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                         3333333 3445667788899999888777664

>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=83.52  E-value=11  Score=28.17  Aligned_cols=61  Identities=8%  Similarity=0.097  Sum_probs=38.3

Q ss_pred             cCCchHHHHHHHHHHHhCCCCc-hhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHH
Q 043124           54 LGALDLGREIHLYVMQIGFDID-VYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSII  114 (331)
Q Consensus        54 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li  114 (331)
                      .++...+..+|..|...|+... ...|......+...|++.+|.++|+.-.+........|.
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~rL~  153 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYNRLL  153 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHHHH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHHHHH
Confidence            3445677777777777766543 345666666777777777777777766555444444443

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.45  E-value=18  Score=30.77  Aligned_cols=94  Identities=6%  Similarity=-0.149  Sum_probs=69.2

Q ss_pred             hHHHHHHHHHccCCchHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC-----CChhhHH----
Q 043124           43 TMATVLSACAHLGALDLGREIHLYVMQIG--FDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE-----KNLFCWN----  111 (331)
Q Consensus        43 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~----  111 (331)
                      +...+...+.+.|+++.|.+.+.++....  ...-...+-..++.+...+++..+...+.+...     ++....+    
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            56778899999999999999999998753  233456777889999999999999988877642     2322211    


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124          112 SIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       112 ~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      .-+..+...+++..|...|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1223345678999999998887654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=82.67  E-value=10  Score=26.57  Aligned_cols=72  Identities=17%  Similarity=0.028  Sum_probs=48.9

Q ss_pred             CCcHhHHHHHHHHHHHcCCHH---HHHHHHHhCC-CCC--cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          175 TPEVEHYGCMVDLLSKAGLLE---DALELIRSSK-FQP--NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       175 ~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      .|+..+--.+..+++++.+.+   +++.+++++- ..|  .......|.-++.+.|++++|.++.+.+++..|++..+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA  113 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  113 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHH
Confidence            456555555667777766554   4556665431 233  23344456667899999999999999999999998766

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=82.20  E-value=12  Score=26.99  Aligned_cols=50  Identities=8%  Similarity=-0.058  Sum_probs=29.2

Q ss_pred             HHHHHHHHHh--cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCC
Q 043124          229 AHIAVNELMI--LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKR  278 (331)
Q Consensus       229 a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  278 (331)
                      +..+|..|..  ++-..+.+|......+...|++.+|..+|+.-.+++-.|.
T Consensus        79 p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~  130 (164)
T 2wvi_A           79 PLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPL  130 (164)
T ss_dssp             HHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             HHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcH
Confidence            3445555544  4445555666666666666666666666666666555544

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	331
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.88
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.76
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.48
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.44
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.37
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.37
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.32
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.31
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.3
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.25
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.2
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.17
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.99
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.95
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.94
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.93
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.92
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.81
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.8
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.79
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.77
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.76
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.74
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.68
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.66
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.64
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.6
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.59
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.58
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.57
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.55
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.51
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.47
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.3
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.3
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.29
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.27
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.27
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.23
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.2
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.18
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.17
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.98
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.96
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.93
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.93
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.88
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.73
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.71
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.63
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.51
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.85
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.77
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.26
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.96
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.03
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.75
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.03
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.46
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.35

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=3.3e-21  Score=162.53  Aligned_cols=285  Identities=12%  Similarity=0.030  Sum_probs=183.7

Q ss_pred             chhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC-----------
Q 043124            5 DIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFD-----------   73 (331)
Q Consensus         5 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------   73 (331)
                      +...+..+...|.+.|++++|+..|++..+.. +-+..++..+..++...|++++|+..+....+....           
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  110 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAA  110 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccccccccccccccccccccc
Confidence            34555566666666666666666666665543 224455666666666666666666655554432110           


Q ss_pred             --------------------------------------------------------CchhHHHHHHHHHHhhCCHHHHHH
Q 043124           74 --------------------------------------------------------IDVYIGSALVDMYAKCGSLDRSLL   97 (331)
Q Consensus        74 --------------------------------------------------------~~~~~~~~l~~~~~~~g~~~~a~~   97 (331)
                                                                              .+...+..+...+...|++++|..
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  190 (388)
T d1w3ba_         111 LVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIH  190 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHH
Confidence                                                                    011233334444555555566655


Q ss_pred             HHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCC
Q 043124           98 VFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSI  174 (331)
Q Consensus        98 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  174 (331)
                      .+++..+   .+..+|..+...+...|++++|...+++....+ +.+...+..+...+.+.|++++|...|++..+..  
T Consensus       191 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--  267 (388)
T d1w3ba_         191 HFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ--  267 (388)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--
Confidence            5554432   234466666677777777777777777766654 3455556666677777777777777777766321  


Q ss_pred             CCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHH
Q 043124          175 TPEVEHYGCMVDLLSKAGLLEDALELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLN  252 (331)
Q Consensus       175 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  252 (331)
                      +-+...+..+...+...|++++|.+.++...  .+.+...+..+...+...|++++|...++++++..|++..++..++.
T Consensus       268 p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~  347 (388)
T d1w3ba_         268 PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLAS  347 (388)
T ss_dssp             SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            2335667777777777777777777776532  23456666677777777788888888888877777777777777778


Q ss_pred             HHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          253 MYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       253 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      +|.+.|++++|...|++..                           +.+|+++.++..|+++|..+++
T Consensus       348 ~~~~~g~~~~A~~~~~~al---------------------------~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         348 VLQQQGKLQEALMHYKEAI---------------------------RISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHTTTCCHHHHHHHHHHH---------------------------TTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHcCCHHHHHHHHHHHH---------------------------HhCCCCHHHHHHHHHHHHHcCC
Confidence            8888888888888777765                           4568899999999999987764

>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=99.88  E-value=7.8e-20  Score=153.96  Aligned_cols=277  Identities=14%  Similarity=0.123  Sum_probs=226.0

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCC
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGS   91 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~   91 (331)
                      +...+.+.|++++|++.|+++.+.. +-+...+..+..++...|++++|+..++++++.. +.+..++..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            4566788999999999999998874 3367888999999999999999999999999985 4467889999999999999


Q ss_pred             HHHHHHHHhhcCCC------------------------------------------------------------------
Q 043124           92 LDRSLLVFFKLREK------------------------------------------------------------------  105 (331)
Q Consensus        92 ~~~a~~~~~~~~~~------------------------------------------------------------------  105 (331)
                      +++|.+.+....+.                                                                  
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            99999887655310                                                                  


Q ss_pred             -----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhH
Q 043124          106 -----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEH  180 (331)
Q Consensus       106 -----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  180 (331)
                           +...+..+...+...|++++|...+++..+.. +-+...+..+...+...|++++|...++......  +.+...
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~  239 (388)
T d1w3ba_         163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS--PNHAVV  239 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC--TTCHHH
T ss_pred             ccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh--hhHHHH
Confidence                 12345566677788889999999999888764 4456778888888999999999999998887432  345667


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          181 YGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       181 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      +..+...+.+.|++++|+..+++. ...|+ ..++..+...+...|++++|.+.++.+....|.+...+..++.++.+.|
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            777888889999999999998863 34554 6778888888999999999999999999988988888888999999999


Q ss_pred             CchHHHHHHHHHHhcCCCCCCCccceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          259 RWAEVTKIRVAMKELGIEKRCPGSSWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       259 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                      ++++|...+++..                           +.+|+++.++..++.+|..+++
T Consensus       320 ~~~~A~~~~~~al---------------------------~~~p~~~~~~~~la~~~~~~g~  354 (388)
T d1w3ba_         320 NIEEAVRLYRKAL---------------------------EVFPEFAAAHSNLASVLQQQGK  354 (388)
T ss_dssp             CHHHHHHHHHHHT---------------------------TSCTTCHHHHHHHHHHHHTTTC
T ss_pred             CHHHHHHHHHHHH---------------------------HhCCCCHHHHHHHHHHHHHcCC
Confidence            9999999998875                           3457788888888888876554

>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=99.76  E-value=2.3e-16  Score=129.77  Aligned_cols=250  Identities=10%  Similarity=-0.045  Sum_probs=191.3

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      .....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|+++.|...++++.+.. +-+...+..++.+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45677889999999999999999875 3467889999999999999999999999999885 446788889999999999


Q ss_pred             CHHHHHHHHhhcCCCCh------------------hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCcHHHHHHHHHH
Q 043124           91 SLDRSLLVFFKLREKNL------------------FCWNSIIEGLAVHGFAHEALAMFDRMIYENV-EPNGVTFISVLSA  151 (331)
Q Consensus        91 ~~~~a~~~~~~~~~~~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~  151 (331)
                      ++++|.+.++.....+.                  ......+..+...+.+.+|.+.|.+..+... .++...+..+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            99999999987642110                  1111222334455677888888888776532 2356677778888


Q ss_pred             HhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHH
Q 043124          152 CTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIA  229 (331)
Q Consensus       152 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a  229 (331)
                      +...|++++|...|++.....  +-+...|..+...|...|++++|++.+++. ...| +...+..+..+|...|++++|
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A  259 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREA  259 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHH
Confidence            899999999999999987332  334778888899999999999999998863 3455 467788888889999999999


Q ss_pred             HHHHHHHHhcCCCCcch-----------HHHHHHHHHhcCCchHHH
Q 043124          230 HIAVNELMILEPNNSGY-----------CTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       230 ~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~a~  264 (331)
                      ...|++++++.|++...           +..+..++...|+.+.+.
T Consensus       260 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         260 VEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999877765443           344556666666666544

>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=99.74  E-value=3.9e-16  Score=128.34  Aligned_cols=225  Identities=12%  Similarity=0.032  Sum_probs=186.1

Q ss_pred             HHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCC
Q 043124           46 TVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGF  122 (331)
Q Consensus        46 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~  122 (331)
                      .....+.+.|++++|+..|+++++.. |.+..+|..+..++...|++++|...|.+..+   .+...|..++..|...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccccccccccccccccccc
Confidence            45667889999999999999999875 44688999999999999999999999987753   366789999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHH----------------HHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          123 AHEALAMFDRMIYENVEPNGV----------------TFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       123 ~~~a~~~~~~m~~~~~~p~~~----------------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      +++|.+.+++.....  |+..                .....+..+...+...+|...|.+..+...-..+...+..+..
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            999999999988753  2110                1111223344557788899999887744433456778888899


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHH
Q 043124          187 LLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVT  264 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  264 (331)
                      .+...|++++|+..+++. ...| +...|..+..++...|++++|.+.++++++.+|+++.++..++.+|.+.|++++|+
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~  260 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAV  260 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999874 3445 47788889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhc
Q 043124          265 KIRVAMKEL  273 (331)
Q Consensus       265 ~~~~~m~~~  273 (331)
                      ..|++..+.
T Consensus       261 ~~~~~al~l  269 (323)
T d1fcha_         261 EHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998864

>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=99.48  E-value=2.6e-11  Score=99.83  Aligned_cols=262  Identities=13%  Similarity=0.006  Sum_probs=193.8

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHccCCchHHHHHHHHHHHhCC--C---CchhHHHHH
Q 043124           12 MITCYSQNKQFREALDAFNEMKNSGISPD----QVTMATVLSACAHLGALDLGREIHLYVMQIGF--D---IDVYIGSAL   82 (331)
Q Consensus        12 li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l   82 (331)
                      ....+...|++++|++++++..+.....+    ...+..+..++...|++++|...++++.+...  .   .....+..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            35667889999999999999988632211    23567788899999999999999998876421  1   123456667


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCC-------C----ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcC----CCCcHHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLRE-------K----NLFCWNSIIEGLAVHGFAHEALAMFDRMIYEN----VEPNGVTFIS  147 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~  147 (331)
                      ...+...|++..+...+.....       +    ....+..+...+...|+++.+...+.......    ......++..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            7888999999999988876532       1    12356677888999999999999999887642    2233455566


Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcC---CCCC--cHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CC-----CcHHHHHHH
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGY---SITP--EVEHYGCMVDLLSKAGLLEDALELIRSSK-FQ-----PNAVIWGAL  216 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~-----p~~~~~~~l  216 (331)
                      ....+...++...+...+.......   +..+  ....+..+...+...|++++|...+++.. ..     .....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            6677788899988888877655321   1111  13345666777889999999999998742 21     124456667


Q ss_pred             HHHHhhcCCHHHHHHHHHHHHh------cCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          217 LGGCKLHRNLEIAHIAVNELMI------LEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       217 ~~~~~~~~~~~~a~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..++...|++++|...+++++.      ..|.....+..+..+|.+.|++++|.+.+++..+.
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            7889999999999999999875      33556677888999999999999999999987654

>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=99.44  E-value=3.1e-12  Score=101.13  Aligned_cols=222  Identities=11%  Similarity=-0.057  Sum_probs=155.2

Q ss_pred             ChhHHHHHHHHHHHCCCCC---CHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHH
Q 043124           21 QFREALDAFNEMKNSGISP---DQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLL   97 (331)
Q Consensus        21 ~~~~a~~~~~~m~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~   97 (331)
                      +.+.++.-+++........   ...+|..+..+|.+.|++++|+..|++.++.. +-+..+|..+..+|.+.|++++|++
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            4556666777776542211   22467788889999999999999999999985 4578899999999999999999999


Q ss_pred             HHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCC
Q 043124           98 VFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSI  174 (331)
Q Consensus        98 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  174 (331)
                      .|++..+   .+..+|..++.++...|++++|...|++..+.. +.+......+..++.+.+..+.+..+.......   
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  168 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS---  168 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS---
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc---
Confidence            9998864   356689999999999999999999999998874 345555444555566666666666665655522   


Q ss_pred             CCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CC----CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHH
Q 043124          175 TPEVEHYGCMVDLLSKAGLLEDALELIRS-SK----FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCT  248 (331)
Q Consensus       175 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~----~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  248 (331)
                      .++...++ ++..+............... ..    ..|+ ..++..+...+...|++++|.+.|++++...|++...|.
T Consensus       169 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         169 DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            22222222 23333222222222222221 11    2232 346667888899999999999999999999998765554

>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=99.37  E-value=1.4e-10  Score=94.27  Aligned_cols=210  Identities=9%  Similarity=0.031  Sum_probs=151.2

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC-CchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124            6 IISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG-ALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus         6 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      ...|+.+...+.+.+.+++|+.+++++.+.+ +-+...|+....++...| ++++|+..++.+++.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            4467777778888899999999999998874 336667888888877765 5899999999988885 447888888899


Q ss_pred             HHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc------
Q 043124           85 MYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA------  155 (331)
Q Consensus        85 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~------  155 (331)
                      ++.+.|++++|++.++++.+   .+..+|..++..+...|++++|++.++++++.+ +-+...|+.+...+.+.      
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchh
Confidence            99999999999999988764   366788889999999999999999999998875 44566676655554443      


Q ss_pred             CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh---CC-CCCcHHHHHHHHHHHh
Q 043124          156 GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS---SK-FQPNAVIWGALLGGCK  221 (331)
Q Consensus       156 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~-~~p~~~~~~~l~~~~~  221 (331)
                      +.+++|+..+....+..  +.+...|..+...+.. ...+++.+.++.   +. ...+...+..++..+.
T Consensus       200 ~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV--PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence            34678888888877332  3356667666555443 334555555543   22 2234555555655543

>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=99.37  E-value=5e-11  Score=96.90  Aligned_cols=225  Identities=12%  Similarity=0.097  Sum_probs=173.2

Q ss_pred             HhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC-CHHHHHHHHhhcCC---CChhhHHHHHHH
Q 043124           41 QVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG-SLDRSLLVFFKLRE---KNLFCWNSIIEG  116 (331)
Q Consensus        41 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~---~~~~~~~~li~~  116 (331)
                      ...|+.+...+.+.+.+++|+.+++++++.. |-+..+|+....++...| ++++|+..++...+   .+..+|+.+...
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~  121 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHH
Confidence            3466777778888999999999999999986 457788999999988876 59999999988764   367899999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCC---
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGL---  193 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  193 (331)
                      +.+.|++++|++.++++.+.. +-+...|..+...+...|++++|+..++.+.+..  +.+...|+.+...+.+.+.   
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHHHHHHccccch
Confidence            999999999999999999875 5578899999999999999999999999999432  3457778877777766655   


Q ss_pred             ---HHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcc--hHHHHHHHHHhc--CCchHHH
Q 043124          194 ---LEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSG--YCTLLLNMYAEV--SRWAEVT  264 (331)
Q Consensus       194 ---~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~--~~~~l~~~~~~~--g~~~~a~  264 (331)
                         +++|++.+.+ +...| +...|..+...+. ....+++.+.++.+.+..|+...  .+..++..|...  +..+.+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~  277 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKE  277 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             hhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHH
Confidence               5778887775 34556 4666666655544 44568888999999887776443  445566776543  4444455


Q ss_pred             HHHHHH
Q 043124          265 KIRVAM  270 (331)
Q Consensus       265 ~~~~~m  270 (331)
                      ..+++.
T Consensus       278 ~~~~ka  283 (315)
T d2h6fa1         278 DILNKA  283 (315)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.32  E-value=4.1e-10  Score=91.17  Aligned_cols=181  Identities=10%  Similarity=0.014  Sum_probs=77.2

Q ss_pred             hHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---C-hhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043124           58 DLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---N-LFCWNSIIEGLAVHGFAHEALAMFDRM  133 (331)
Q Consensus        58 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-~~~~~~li~~~~~~~~~~~a~~~~~~m  133 (331)
                      ++|..+++..++...+.+...|...+..+.+.|++++|..+|+++.+.   + ..+|...+..+.+.|+.+.|.++|+++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            444455555444322333344444455555555555555555544321   1 123444455555555555555555555


Q ss_pred             HHcCCCCcHHHHHHHHH-HHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCC
Q 043124          134 IYENVEPNGVTFISVLS-ACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS----KFQP  208 (331)
Q Consensus       134 ~~~~~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p  208 (331)
                      .+.+ +.+...|..... .+...|+.+.|..+|+.+.+..  +.+...|...+..+.+.|++++|..+|++.    +..|
T Consensus       161 l~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            4442 112222222211 1222344455555555544221  223444444444444555555555444431    1122


Q ss_pred             c--HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCC
Q 043124          209 N--AVIWGALLGGCKLHRNLEIAHIAVNELMILEP  241 (331)
Q Consensus       209 ~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  241 (331)
                      +  ...|...+..-...|+.+.+.++.+++.+.-|
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~  272 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            1  22344444443444455555554444444333

>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=99.31  E-value=5.6e-10  Score=90.35  Aligned_cols=213  Identities=8%  Similarity=-0.022  Sum_probs=156.9

Q ss_pred             hHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--------------hCCHHHHHHHHhhcCC----CChhhHHHHHHHHHh
Q 043124           58 DLGREIHLYVMQIGFDIDVYIGSALVDMYAK--------------CGSLDRSLLVFFKLRE----KNLFCWNSIIEGLAV  119 (331)
Q Consensus        58 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~  119 (331)
                      +.+..+|++++.. ++.+..+|...+..+.+              .+..++|..+|++..+    .+...|...+..+.+
T Consensus        33 ~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            3455566666655 23345555554444322              2345788888887543    355678888999999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHH-HHHcCCHHHHH
Q 043124          120 HGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDL-LSKAGLLEDAL  198 (331)
Q Consensus       120 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  198 (331)
                      .|+++.|..+|+++.+.........|...+..+.+.|+.+.|..+|.++.+..  +.+...|...... +...|+.+.|.
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~--~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            99999999999999886433335578888999999999999999999998432  3334445444433 33468999999


Q ss_pred             HHHHhCC--CCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc----chHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          199 ELIRSSK--FQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS----GYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       199 ~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      .+|+..-  ...+...|...+..+...|+++.|..+|++++...|.++    ..|...+..-...|+.+.+..+++++.+
T Consensus       190 ~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         190 KIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9998742  234578889999999999999999999999999666443    3677778777889999999999999876


Q ss_pred             c
Q 043124          273 L  273 (331)
Q Consensus       273 ~  273 (331)
                      .
T Consensus       270 ~  270 (308)
T d2onda1         270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=99.30  E-value=3e-11  Score=95.33  Aligned_cols=213  Identities=10%  Similarity=-0.077  Sum_probs=145.7

Q ss_pred             chHHHHHHHHHHHhCC-CC--chhHHHHHHHHHHhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHH
Q 043124           57 LDLGREIHLYVMQIGF-DI--DVYIGSALVDMYAKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMF  130 (331)
Q Consensus        57 ~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~  130 (331)
                      .+.++.-+++.+.... .+  ...++..+..+|.+.|++++|.+.|++..+   .++.+|+.+..++.+.|++++|++.|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            3455555566654321 11  245777889999999999999999998763   46789999999999999999999999


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCc
Q 043124          131 DRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK-FQPN  209 (331)
Q Consensus       131 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~  209 (331)
                      +++.+.+ +-+..++..+..++...|++++|...|+...+..  +.+......+...+.+.+..+.+..+..... ..++
T Consensus        95 ~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (259)
T d1xnfa_          95 DSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKE  171 (259)
T ss_dssp             HHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCC
T ss_pred             hHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchh
Confidence            9999875 4456778888899999999999999999988432  2334444444445555555555444433211 1122


Q ss_pred             HHHHHHHHHHHhh----cCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          210 AVIWGALLGGCKL----HRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       210 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ...+. ++..+..    .+..+.+...+.......|.....|..++..|...|++++|...|++....
T Consensus       172 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         172 QWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             STHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            11221 2222222    222344444444444456766777888999999999999999999998753

>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=99.25  E-value=1.2e-11  Score=101.75  Aligned_cols=253  Identities=9%  Similarity=-0.045  Sum_probs=171.7

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH-hhHHHHHHH---H-------HccCCchHHHHHHHHHHHhCCCCchhH
Q 043124           10 TTMITCYSQNKQFREALDAFNEMKNSGISPDQ-VTMATVLSA---C-------AHLGALDLGREIHLYVMQIGFDIDVYI   78 (331)
Q Consensus        10 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~---~-------~~~~~~~~a~~~~~~~~~~~~~~~~~~   78 (331)
                      +.++......+..++|++++++..+..  |+. ..|+..-..   .       ...|.+++|+.+++.+++.. +.+...
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~  109 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGT  109 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHH
Confidence            334444444444588999999988763  443 344332222   2       22345778888888888875 446667


Q ss_pred             HHHHHHHHHhhC--CHHHHHHHHhhcCC---CChhhHH-HHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 043124           79 GSALVDMYAKCG--SLDRSLLVFFKLRE---KNLFCWN-SIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSAC  152 (331)
Q Consensus        79 ~~~l~~~~~~~g--~~~~a~~~~~~~~~---~~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  152 (331)
                      |..+..++...+  ++++|...+++..+   ++...+. .....+...+.+++|+..++++.+.+ +-+...|..+...+
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~  188 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLL  188 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            777777776665  47888888887753   3445544 44567777888999999999888875 45677788888888


Q ss_pred             hccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCcHHHHHHHHHHHhhcCCHHHHH
Q 043124          153 THAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KF-QPNAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       153 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                      ...|++++|...+....+.   .|.  . ..+...+...+..+++...+... .. .++...+..+...+...++.++|.
T Consensus       189 ~~~~~~~~A~~~~~~~~~~---~~~--~-~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~  262 (334)
T d1dcea1         189 PQLHPQPDSGPQGRLPENV---LLK--E-LELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESC  262 (334)
T ss_dssp             HHHSCCCCSSSCCSSCHHH---HHH--H-HHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHhHHh---HHH--H-HHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHH
Confidence            8888887776666555421   121  1 12233345556666666655542 12 233445555666777788999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHh
Q 043124          231 IAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKE  272 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  272 (331)
                      ..+.+....+|++..++..++.+|.+.|++++|.+.+++..+
T Consensus       263 ~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~  304 (334)
T d1dcea1         263 KELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  304 (334)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999998888889999999999999999999998874

>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=99.20  E-value=1.4e-09  Score=89.15  Aligned_cols=230  Identities=13%  Similarity=0.021  Sum_probs=166.9

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhhCCHHHHHHHHhhcCC-----CC----hhhH
Q 043124           44 MATVLSACAHLGALDLGREIHLYVMQIGFDID----VYIGSALVDMYAKCGSLDRSLLVFFKLRE-----KN----LFCW  110 (331)
Q Consensus        44 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~  110 (331)
                      .......+...|++++|++++++.++.....+    ..++..+..+|...|++++|.+.|++..+     ++    ..++
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            34445667889999999999999988642211    34677788999999999999999987753     11    2456


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHc----CC--CCc-HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCC---CCCcHhH
Q 043124          111 NSIIEGLAVHGFAHEALAMFDRMIYE----NV--EPN-GVTFISVLSACTHAGLVEEGRRRFLSMTCGYS---ITPEVEH  180 (331)
Q Consensus       111 ~~li~~~~~~~~~~~a~~~~~~m~~~----~~--~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~  180 (331)
                      ..+...+...|++..+...+.+....    +.  .+. ...+..+...+...|+++.+...+........   .......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            77788899999999999999887642    11  122 23455667788899999999999988774322   2223445


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCc----chH
Q 043124          181 YGCMVDLLSKAGLLEDALELIRSS-------KFQPN--AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNS----GYC  247 (331)
Q Consensus       181 ~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~  247 (331)
                      +..+...+...+++.++...+.+.       ...+.  ...+..+...+...|+++.|...+++.....|.+.    ..+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            566667788889998887776542       21221  23445555668899999999999999988665433    334


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          248 TLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       248 ~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..+..++...|++++|...+++....
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~  280 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNEN  280 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            56889999999999999999988643

>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=99.17  E-value=1.2e-10  Score=95.59  Aligned_cols=229  Identities=7%  Similarity=-0.106  Sum_probs=172.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccC--CchHHHHHHHHHHHhCCCCchhHH-HHHHHHHHhhCCHHHH
Q 043124           19 NKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLG--ALDLGREIHLYVMQIGFDIDVYIG-SALVDMYAKCGSLDRS   95 (331)
Q Consensus        19 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a   95 (331)
                      .|++++|+.+++...+.. +-+...|..+..++...+  ++++|...++.+.+... ++...+ ......+...|.+++|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHH
Confidence            345789999999998874 346677777777776655  57899999999998853 345544 4455778888999999


Q ss_pred             HHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcC
Q 043124           96 LLVFFKLREK---NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGY  172 (331)
Q Consensus        96 ~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  172 (331)
                      +..++...+.   +..+|+.+..++.+.|++++|...+++..+.  .|+..   .....+...+..+++...+.......
T Consensus       164 l~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         164 LAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            9999988864   5678999999999999999887777665543  22221   22334455666677777777776332


Q ss_pred             CCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 043124          173 SITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLL  250 (331)
Q Consensus       173 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  250 (331)
                        +++...+..+...+...+++++|...+.+. ...|+ ...+..+..++...|+.++|.+.++++++++|+...+|..|
T Consensus       239 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         239 --AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             --CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             --cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHH
Confidence              344556666777888899999999998874 45664 56777788889999999999999999999999988888888


Q ss_pred             HHHHHh
Q 043124          251 LNMYAE  256 (331)
Q Consensus       251 ~~~~~~  256 (331)
                      ...+.-
T Consensus       317 ~~~~~~  322 (334)
T d1dcea1         317 RSKFLL  322 (334)
T ss_dssp             HHHHHH
T ss_pred             HHHHhH
Confidence            766654

>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=98.99  E-value=3.3e-08  Score=73.65  Aligned_cols=139  Identities=9%  Similarity=-0.075  Sum_probs=97.1

Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGR  162 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  162 (331)
                      ...+...|++++|++.|.++..++..+|..+..+|...|++++|++.|++.++.+ +-+...|..+..++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            5567788999999999998888888888889999999999999999999988875 456778888888888999999999


Q ss_pred             HHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Q 043124          163 RRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSSK--FQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMIL  239 (331)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  239 (331)
                      ..|++.....  +.+...      .             +...+  ..++ ..++..+..++...|++++|.+.+++++..
T Consensus        91 ~~~~kAl~~~--~~n~~~------~-------------~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          91 KDLKEALIQL--RGNQLI------D-------------YKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHTT--TTCSEE------E-------------CGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhC--ccCchH------H-------------HHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            8888876221  111000      0             00011  1111 233444555666777777777777777776


Q ss_pred             CCCC
Q 043124          240 EPNN  243 (331)
Q Consensus       240 ~p~~  243 (331)
                      .|..
T Consensus       150 ~~~~  153 (192)
T d1hh8a_         150 KSEP  153 (192)
T ss_dssp             CCSG
T ss_pred             CCCc
Confidence            6653

>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=98.95  E-value=6e-08  Score=77.37  Aligned_cols=194  Identities=10%  Similarity=-0.052  Sum_probs=105.7

Q ss_pred             HHHHHccCCchHHHHHHHHHHHh----CCCC-chhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---------ChhhHHHH
Q 043124           48 LSACAHLGALDLGREIHLYVMQI----GFDI-DVYIGSALVDMYAKCGSLDRSLLVFFKLREK---------NLFCWNSI  113 (331)
Q Consensus        48 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l  113 (331)
                      ...|...|++++|.+.|.++.+.    +-++ -..+|..+..+|.+.|++++|.+.+++..+-         ...++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            44566666777777777666543    1111 2345666677777777777777666654321         12345555


Q ss_pred             HHHHHh-CCCHHHHHHHHHHHHHc----CCCCc-HHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-----HhHHH
Q 043124          114 IEGLAV-HGFAHEALAMFDRMIYE----NVEPN-GVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-----VEHYG  182 (331)
Q Consensus       114 i~~~~~-~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~  182 (331)
                      ...|.. .|++++|++.|++..+.    +.++. ..++..+...+...|++++|...|+++.......+.     ...+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            555533 47777777777766432    21111 344566677777777777777777776632211111     12233


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCC-CCCc------HHHHHHHHHHHhh--cCCHHHHHHHHHHHHhcCC
Q 043124          183 CMVDLLSKAGLLEDALELIRSSK-FQPN------AVIWGALLGGCKL--HRNLEIAHIAVNELMILEP  241 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~~-~~p~------~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~p  241 (331)
                      ..+..+...|+++.|...+++.. +.|+      ......++.++..  .+.+++|...|+++.+++|
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            44445666777777777777642 2221      2233445555433  2346667666665555544

>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=98.94  E-value=1.7e-08  Score=68.65  Aligned_cols=88  Identities=15%  Similarity=0.116  Sum_probs=63.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCch
Q 043124          184 MVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWA  261 (331)
Q Consensus       184 l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  261 (331)
                      -...+...|++++|+.+|++. ...| +...|..+..++...|++++|...++++++.+|+++..|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            345566777777777777753 2334 46667777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHH
Q 043124          262 EVTKIRVAMK  271 (331)
Q Consensus       262 ~a~~~~~~m~  271 (331)
                      +|+..+++..
T Consensus        89 ~A~~~~~~a~   98 (117)
T d1elwa_          89 EAKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777766

>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=98.93  E-value=2.9e-08  Score=79.29  Aligned_cols=230  Identities=10%  Similarity=-0.001  Sum_probs=128.4

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcC
Q 043124           24 EALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        24 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      ++.+++++..+.+ +|....+. ++. -...+++++|.++|.++               .++|...|++++|.+.|.+..
T Consensus         3 ~~~~~l~~aek~~-~~~~~~~~-~~~-~~~~~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA~   64 (290)
T d1qqea_           3 DPVELLKRAEKKG-VPSSGFMK-LFS-GSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAA   64 (290)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHHH-HHS-CCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-CcchhHHH-Hhc-CCccccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHHH
Confidence            3455666655543 33332222 111 12233456666655443               456777777777777776654


Q ss_pred             C-----CC----hhhHHHHHHHHHhCCCHHHHHHHHHHHHHc----C-CCCcHHHHHHHHHHHh-ccCcHHHHHHHHHhh
Q 043124          104 E-----KN----LFCWNSIIEGLAVHGFAHEALAMFDRMIYE----N-VEPNGVTFISVLSACT-HAGLVEEGRRRFLSM  168 (331)
Q Consensus       104 ~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~p~~~~~~~ll~~~~-~~~~~~~a~~~~~~~  168 (331)
                      +     .+    ..+|+.+..+|.+.|++++|.+.+++..+.    | ......++..+...|. ..|++++|+..|++.
T Consensus        65 ~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A  144 (290)
T d1qqea_          65 DYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELA  144 (290)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHH
Confidence            3     11    246777788888888888888888776542    1 1111344555555553 457888888887775


Q ss_pred             hhc---CCCCCc-HhHHHHHHHHHHHcCCHHHHHHHHHhCC-CC-------CcH-HHHHHHHHHHhhcCCHHHHHHHHHH
Q 043124          169 TCG---YSITPE-VEHYGCMVDLLSKAGLLEDALELIRSSK-FQ-------PNA-VIWGALLGGCKLHRNLEIAHIAVNE  235 (331)
Q Consensus       169 ~~~---~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~-------p~~-~~~~~l~~~~~~~~~~~~a~~~~~~  235 (331)
                      .+-   .+.++. ..++..+...+...|++++|++.+++.. ..       ... ..+...+..+...++++.|...+++
T Consensus       145 ~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~  224 (290)
T d1qqea_         145 GEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQE  224 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHG
T ss_pred             HHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            421   121221 4456777778888888888888877531 11       111 1223344456677888888888888


Q ss_pred             HHhcCCCCcc-----hHHHHHHHHHh--cCCchHHHHHHHHHH
Q 043124          236 LMILEPNNSG-----YCTLLLNMYAE--VSRWAEVTKIRVAMK  271 (331)
Q Consensus       236 ~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~a~~~~~~m~  271 (331)
                      +.+.+|....     ....++.++..  .+.+++|+..|+++.
T Consensus       225 ~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         225 GQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             GGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            8776664222     23445555544  234667776665543

>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=98.92  E-value=4.4e-08  Score=72.97  Aligned_cols=126  Identities=12%  Similarity=-0.004  Sum_probs=101.2

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 043124            8 SWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYA   87 (331)
Q Consensus         8 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (331)
                      .|+. ...+...|++++|++.|+++    .+|+..+|..+..++...|++++|++.|++.++.. +.+...|..+..+|.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHH
Confidence            4554 66778899999999999864    35678889999999999999999999999999986 457888999999999


Q ss_pred             hhCCHHHHHHHHhhcCC---C----------------ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Q 043124           88 KCGSLDRSLLVFFKLRE---K----------------NLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVE  139 (331)
Q Consensus        88 ~~g~~~~a~~~~~~~~~---~----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  139 (331)
                      +.|++++|.+.|++...   .                ...++..+..++.+.|++++|.+.++...+....
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            99999999988876531   1                1235667777888888888888888887775433

>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=98.83  E-value=1.7e-08  Score=75.86  Aligned_cols=92  Identities=13%  Similarity=-0.010  Sum_probs=47.9

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVD  186 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~  186 (331)
                      ..+...+..+.+.|++++|+..|++.++.. |.+...|..+..+|.+.|++++|+..|+...   .+.| +...|..+..
T Consensus         5 ~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~lg~   80 (201)
T d2c2la1           5 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFFLGQ   80 (201)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHHHHH
Confidence            334444555555555555555555555543 3345555555555555555555555555555   1223 2444555555


Q ss_pred             HHHHcCCHHHHHHHHHh
Q 043124          187 LLSKAGLLEDALELIRS  203 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~  203 (331)
                      +|...|++++|+..|++
T Consensus        81 ~~~~l~~~~~A~~~~~~   97 (201)
T d2c2la1          81 CQLEMESYDEAIANLQR   97 (201)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHH
Confidence            55555555555555543

>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=98.81  E-value=7.2e-08  Score=65.48  Aligned_cols=104  Identities=15%  Similarity=0.058  Sum_probs=79.7

Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCC
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRN  225 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  225 (331)
                      -...+...|++++|+..|++..+..  +.+...|..+..+|...|++++|+..+++. .+.| +...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            4556777888888888888887432  445677888888888888888888888763 3333 57778888888888899


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 043124          226 LEIAHIAVNELMILEPNNSGYCTLLLNM  253 (331)
Q Consensus       226 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~  253 (331)
                      +++|...++++++..|+++.++..+..+
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999988888888777666554

>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=98.80  E-value=7.6e-08  Score=69.35  Aligned_cols=102  Identities=8%  Similarity=-0.075  Sum_probs=58.0

Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCC
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRN  225 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  225 (331)
                      ....|.+.|++++|+..|++..+..  +-+...|..+..+|...|++++|+..|++. ...| +...|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            3445556666666666666666322  234555666666666666666666666542 2333 34556666666666666


Q ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHH
Q 043124          226 LEIAHIAVNELMILEPNNSGYCTLLL  251 (331)
Q Consensus       226 ~~~a~~~~~~~~~~~p~~~~~~~~l~  251 (331)
                      +++|...+++++.+.|++..++..+.
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~~~~~l~  119 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKDAKMKYQ  119 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            66666666666666666555544433

>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=98.79  E-value=3.7e-08  Score=73.91  Aligned_cols=117  Identities=9%  Similarity=-0.129  Sum_probs=87.1

Q ss_pred             CcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCc-HHHHHHHH
Q 043124          140 PNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPN-AVIWGALL  217 (331)
Q Consensus       140 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~-~~~~~~l~  217 (331)
                      |+...+......+.+.|++++|+..|++..+..  +.+...|..+..+|.+.|++++|+..|++ +.+.|+ ..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            666777777888888888888888888877332  44577788888888888888888888886 456664 67788888


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcC
Q 043124          218 GGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVS  258 (331)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  258 (331)
                      .++...|++++|...|++++.+.|++...+...+..+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~  120 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIA  120 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            88888888888888888888877765544444444444433

>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=98.77  E-value=3.3e-06  Score=65.88  Aligned_cols=230  Identities=11%  Similarity=-0.004  Sum_probs=118.6

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHc----cCCchHHHHHHHHHHHhCCCCchhHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAH----LGALDLGREIHLYVMQIGFDIDVYIGSAL   82 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   82 (331)
                      ..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...+...+....+.+.   ......+
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l   76 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLL   76 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhcc
Confidence            344555555555666666666666665544   33444444444433    3345555555555444431   1222222


Q ss_pred             HHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH--HhccCcHHH
Q 043124           83 VDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSA--CTHAGLVEE  160 (331)
Q Consensus        83 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~  160 (331)
                      ...+...                           .....+.+.|...++...+.|.... .........  .........
T Consensus        77 ~~~~~~~---------------------------~~~~~~~~~a~~~~~~a~~~g~~~a-~~~l~~~~~~~~~~~~~~~~  128 (265)
T d1ouva_          77 GNLYYSG---------------------------QGVSQNTNKALQYYSKACDLKYAEG-CASLGGIYHDGKVVTRDFKK  128 (265)
T ss_dssp             HHHHHHT---------------------------SSSCCCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHCSSSCCCHHH
T ss_pred             ccccccc---------------------------cccchhhHHHHHHHhhhhhhhhhhH-HHhhcccccCCCcccchhHH
Confidence            2222210                           0113345556666665555542111 111111111  122344555


Q ss_pred             HHHHHHhhhhcCCCCCcHhHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhh----cCCHHHHHHH
Q 043124          161 GRRRFLSMTCGYSITPEVEHYGCMVDLLSK----AGLLEDALELIRSSKFQPNAVIWGALLGGCKL----HRNLEIAHIA  232 (331)
Q Consensus       161 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~  232 (331)
                      +...+.... .   ..+...+..|...|..    ..+...+...++...-..+......+...+..    .++++.|..+
T Consensus       129 a~~~~~~~~-~---~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~  204 (265)
T d1ouva_         129 AVEYFTKAC-D---LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALAR  204 (265)
T ss_dssp             HHHHHHHHH-H---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHH
T ss_pred             HHHHhhhhh-c---ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhh
Confidence            555555544 2   2234455555555554    34555555555543222345555555555443    5689999999


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHh----cCCchHHHHHHHHHHhcCCC
Q 043124          233 VNELMILEPNNSGYCTLLLNMYAE----VSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       233 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~  276 (331)
                      |+++.+.+  ++..+..|+.+|.+    ..+.++|.+.|++..+.|-.
T Consensus       205 ~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         205 YSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             Hhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            98887764  34566778888875    34788899999988877743

>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=98.76  E-value=1.9e-07  Score=67.92  Aligned_cols=81  Identities=11%  Similarity=-0.011  Sum_probs=59.5

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCEE
Q 043124          212 IWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERKV  291 (331)
Q Consensus       212 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~  291 (331)
                      +|+.+..+|.+.|++++|...+++++..+|+++.++..++.+|...|++++|...|++..+                   
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~-------------------  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ-------------------  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH-------------------
Confidence            4555666777888888888888888888888788888888888888888888888887763                   


Q ss_pred             EEeecCCCCCCCchHHHHHHHHHHHHHH
Q 043124          292 YQFAASDKSHPASDEIYSSLSKLDEQLK  319 (331)
Q Consensus       292 ~~~~~~~~~~p~~~~~~~~l~~l~~~~~  319 (331)
                              .+|+++.+...+..+...++
T Consensus       125 --------l~P~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1         125 --------LYPNNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             --------HCSSCHHHHHHHHHHHHHHH
T ss_pred             --------hCCCCHHHHHHHHHHHHHHH
Confidence                    34666667766666655444

>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=98.74  E-value=1.1e-07  Score=68.37  Aligned_cols=120  Identities=11%  Similarity=-0.059  Sum_probs=91.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .+...+..|.+.|++++|+..|++.++.+ +-+...|..+..++...|++++|+..|+...+..  +-+...|..+..++
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~~~~a~~~~g~~~   88 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASN   88 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--ccchHHHHHHHHHH
Confidence            45667788999999999999999999985 5678888899999999999999999999998432  44578899999999


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHH--HhhcCCHHHHHH
Q 043124          189 SKAGLLEDALELIRSS-KFQPN-AVIWGALLGG--CKLHRNLEIAHI  231 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~--~~~~~~~~~a~~  231 (331)
                      ...|++++|...+++. ...|+ ...+..+..+  ....+.++++..
T Consensus        89 ~~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          89 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999874 34454 3333333333  233334444443

>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=98.68  E-value=7.8e-08  Score=65.63  Aligned_cols=101  Identities=15%  Similarity=-0.017  Sum_probs=63.1

Q ss_pred             HHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCH---HHHHHHHHhC-CCCCcH---HHHHHHHH
Q 043124          146 ISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLL---EDALELIRSS-KFQPNA---VIWGALLG  218 (331)
Q Consensus       146 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~-~~~p~~---~~~~~l~~  218 (331)
                      ..++..+...+++++|.+.|++.....  +.+..++..+..++.+.++.   ++|+.++++. ...|+.   .++..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            345666677777777777777776332  33456666667666654433   4577777663 233332   24556666


Q ss_pred             HHhhcCCHHHHHHHHHHHHhcCCCCcchHH
Q 043124          219 GCKLHRNLEIAHIAVNELMILEPNNSGYCT  248 (331)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  248 (331)
                      +|.+.|++++|.+.|+++++++|++..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~  110 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKE  110 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHH
Confidence            677777777777777777777777666543

>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=98.66  E-value=8.4e-08  Score=64.56  Aligned_cols=89  Identities=16%  Similarity=0.037  Sum_probs=79.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCc
Q 043124          183 CMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRW  260 (331)
Q Consensus       183 ~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  260 (331)
                      .+...+.+.|++++|+..|++. ...| +...|..+..++.+.|++++|+..++++++.+|++...+..++.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            3567788999999999999974 3456 5888999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH
Q 043124          261 AEVTKIRVAMK  271 (331)
Q Consensus       261 ~~a~~~~~~m~  271 (331)
                      ++|.+.+++.+
T Consensus       101 ~~A~~~l~~~l  111 (112)
T d1hxia_         101 NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998864

>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=98.64  E-value=2.6e-07  Score=65.88  Aligned_cols=84  Identities=14%  Similarity=-0.020  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCCE
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMERK  290 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~  290 (331)
                      .++..+..+|.+.|++++|.+.++++++.+|++..+|..++.++...|++++|...|++..+                  
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~------------------  129 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS------------------  129 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH------------------
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH------------------
Confidence            46677888899999999999999999999999999999999999999999999999999874                  


Q ss_pred             EEEeecCCCCCCCchHHHHHHHHHHHHHHhc
Q 043124          291 VYQFAASDKSHPASDEIYSSLSKLDEQLKLA  321 (331)
Q Consensus       291 ~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  321 (331)
                               .+|++.++...+..+...+++.
T Consensus       130 ---------l~P~n~~~~~~l~~~~~kl~~~  151 (153)
T d2fbna1         130 ---------LNPNNLDIRNSYELCVNKLKEA  151 (153)
T ss_dssp             ---------HSTTCHHHHHHHHHHHHHHHHH
T ss_pred             ---------hCCCCHHHHHHHHHHHHHHHHH
Confidence                     3588888888888888777653

>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=98.60  E-value=6.4e-07  Score=65.06  Aligned_cols=132  Identities=14%  Similarity=0.051  Sum_probs=91.9

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .+...+..+.+.|++++|+..|++.++.. +...             +..+.-......+.        ..+|+.+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~-~~~~-------------~~~~~~~~~~~~~~--------~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWL-EYES-------------SFSNEEAQKAQALR--------LASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCC-------------CCCSHHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh-hhcc-------------ccchHHHhhhchhH--------HHHHHHHHHHH
Confidence            45556667777778888888777776541 1000             00000001111111        23577788899


Q ss_pred             HHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchH
Q 043124          189 SKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAE  262 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  262 (331)
                      .+.|++++|+..+++ +...| +...+..+..++...|++++|...|+++++++|++..+...+..+..+.+....
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~  148 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLA  148 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999986 34556 688889999999999999999999999999999999988877777665554443

>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=6.6e-07  Score=60.87  Aligned_cols=104  Identities=11%  Similarity=-0.028  Sum_probs=74.7

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccC---cHHHHHHHHHhhhhcCCCCCc-HhHHHHHHH
Q 043124          111 NSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAG---LVEEGRRRFLSMTCGYSITPE-VEHYGCMVD  186 (331)
Q Consensus       111 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~  186 (331)
                      ..+++.+...+++++|.+.|++..+.+ +.+..++..+..++.+.+   +.++|+.+|+++. ..+..|+ ..++..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l-~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELL-PKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHT-TTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHH-hccCCchHHHHHHHHHH
Confidence            467778888889999999999888875 567777777888887644   4557888888887 3322232 346677888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCcHHHHHHH
Q 043124          187 LLSKAGLLEDALELIRSS-KFQPNAVIWGAL  216 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l  216 (331)
                      +|.+.|++++|++.|++. .+.|+......+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l  111 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKEL  111 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHH
Confidence            888999999999988874 456764433333

>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=98.58  E-value=2.5e-08  Score=85.93  Aligned_cols=113  Identities=9%  Similarity=-0.091  Sum_probs=51.6

Q ss_pred             cCcHHHHHHHHHhhhhcCCCCC-cHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCc-HHHHHHHHHHHhhcCCHHHHHHH
Q 043124          155 AGLVEEGRRRFLSMTCGYSITP-EVEHYGCMVDLLSKAGLLEDALELIRSSKFQPN-AVIWGALLGGCKLHRNLEIAHIA  232 (331)
Q Consensus       155 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~  232 (331)
                      .+.++.|+..+....   ++.| +...+..+...+.+.|+.++|...+++.- .++ ..++..+...+...|++++|...
T Consensus        99 ~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1          99 SGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSC-SYICQHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHHTC----------------------------------CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHH
Confidence            344455554444433   2222 24445555556666666666665543321 111 23455555666677777777777


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          233 VNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       233 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ++++.++.|++...|+.|+..+...|+..+|...|.+..
T Consensus       175 y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral  213 (497)
T d1ya0a1         175 YRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSI  213 (497)
T ss_dssp             HHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777777777777777777777777777777777777665

>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=98.57  E-value=5.2e-07  Score=65.52  Aligned_cols=84  Identities=12%  Similarity=0.036  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCccceEEeCC
Q 043124          210 AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGSSWIEMER  289 (331)
Q Consensus       210 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  289 (331)
                      ...+..+..++.+.|++++|+..++++++++|+++.+|..++.+|.+.|++++|...|++..+                 
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~-----------------  139 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE-----------------  139 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH-----------------
Confidence            456677778889999999999999999999999999999999999999999999999999874                 


Q ss_pred             EEEEeecCCCCCCCchHHHHHHHHHHHHHHh
Q 043124          290 KVYQFAASDKSHPASDEIYSSLSKLDEQLKL  320 (331)
Q Consensus       290 ~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~  320 (331)
                                .+|+++.+...+..++..+++
T Consensus       140 ----------l~p~n~~~~~~l~~~~~~l~~  160 (169)
T d1ihga1         140 ----------IAPEDKAIQAELLKVKQKIKA  160 (169)
T ss_dssp             ----------HCTTCHHHHHHHHHHHHHHHH
T ss_pred             ----------hCCCCHHHHHHHHHHHHHHHH
Confidence                      347778888888888776654

>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=3.4e-07  Score=61.47  Aligned_cols=89  Identities=11%  Similarity=-0.053  Sum_probs=63.7

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhC
Q 043124           11 TMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCG   90 (331)
Q Consensus        11 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (331)
                      .+...+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|+..++++++.. +.+..++..+..+|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            35566777777777777777777664 2356677777777777777777777777777764 445667777777777777


Q ss_pred             CHHHHHHHHhh
Q 043124           91 SLDRSLLVFFK  101 (331)
Q Consensus        91 ~~~~a~~~~~~  101 (331)
                      ++++|.+.|++
T Consensus        99 ~~~~A~~~l~~  109 (112)
T d1hxia_          99 NANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            77777777765

>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=98.51  E-value=0.0001  Score=57.02  Aligned_cols=126  Identities=10%  Similarity=-0.005  Sum_probs=67.5

Q ss_pred             chhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHH----ccCCchHHHHHHHHHHHhCCCCch
Q 043124            5 DIISWTTMITCYSQ----NKQFREALDAFNEMKNSGISPDQVTMATVLSACA----HLGALDLGREIHLYVMQIGFDIDV   76 (331)
Q Consensus         5 ~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~   76 (331)
                      |..++..|...|..    ..+...|...+......+   +......+...+.    ...+.+.|...++...+.|..   
T Consensus        33 ~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---  106 (265)
T d1ouva_          33 ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---  106 (265)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---
T ss_pred             CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---
Confidence            44455556666665    567888888888877765   3333444444433    245667788888877776532   


Q ss_pred             hHHHHHHHHHHh----hCCHHHHHHHHhhcCC-CChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHc
Q 043124           77 YIGSALVDMYAK----CGSLDRSLLVFFKLRE-KNLFCWNSIIEGLAV----HGFAHEALAMFDRMIYE  136 (331)
Q Consensus        77 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~  136 (331)
                      .....+...+..    ......+...+..... .+...+..+...+..    ..+...+...++...+.
T Consensus       107 ~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~  175 (265)
T d1ouva_         107 EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL  175 (265)
T ss_dssp             HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             hHHHhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhccCCCcccccccchhhhhccccc
Confidence            222233333332    2334555555544333 344555555555553    23344555555555443

>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=98.47  E-value=6.4e-06  Score=59.44  Aligned_cols=79  Identities=11%  Similarity=0.008  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhc
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS-KFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEV  257 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  257 (331)
                      .|+.+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|...|++++.++|++..+...+..+..+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            3444555555566666665555542 2222 3555555555555666666666666666656665555544444444333


Q ss_pred             C
Q 043124          258 S  258 (331)
Q Consensus       258 g  258 (331)
                      +
T Consensus       146 ~  146 (168)
T d1kt1a1         146 K  146 (168)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.30  E-value=5.6e-06  Score=59.84  Aligned_cols=131  Identities=10%  Similarity=0.029  Sum_probs=92.3

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .+......+...|++++|++.|+++++..  +.          ..........    ..+.     +.....|..+..++
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~~--~~----------~~~~~~~~~~----~~~~-----~~~~~~~~nla~~~   87 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EG----------SRAAAEDADG----AKLQ-----PVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HH----------HHHHSCHHHH----GGGH-----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhh--hh----------hhhhhhhHHH----HHhC-----hhhHHHHHHHHHHH
Confidence            35556667788888888888888765420  00          0000000000    0111     22455777888999


Q ss_pred             HHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCc
Q 043124          189 SKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRW  260 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  260 (331)
                      .+.|++++|+..+++ +.+.| +...|..+..++...|+++.|...|++++++.|++..+...+..+..+....
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~  161 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQ  161 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999987 45566 4788999999999999999999999999999999988877777666544433

>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=98.30  E-value=0.00037  Score=55.59  Aligned_cols=245  Identities=11%  Similarity=0.025  Sum_probs=148.2

Q ss_pred             CCCchhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 043124            2 PARDIISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSA   81 (331)
Q Consensus         2 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   81 (331)
                      ..||..--..+..-|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.++..   +.+   +..+|..
T Consensus        10 ~~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~---k~~---~~~~~k~   74 (336)
T d1b89a_          10 NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGAR---KAN---STRTWKE   74 (336)
T ss_dssp             TCC----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHH---HHT---CHHHHHH
T ss_pred             cCCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHH---HcC---CHHHHHH
Confidence            34566666677888889999999999998643         35677888889999988877654   333   5668888


Q ss_pred             HHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHH
Q 043124           82 LVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEG  161 (331)
Q Consensus        82 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  161 (331)
                      +...+.+.....-|.-+ ......+......++..|-..|.+++...+++..... -.++...++.++..|++.+. ++-
T Consensus        75 ~~~~l~~~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl  151 (336)
T d1b89a_          75 VCFACVDGKEFRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKM  151 (336)
T ss_dssp             HHHHHHHTTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHH
T ss_pred             HHHHHHhCcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHH
Confidence            88888887776554322 2222235555567888999999999999999987654 25667778888888888654 344


Q ss_pred             HHHHHhhhhcCCCCC------cHhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 043124          162 RRRFLSMTCGYSITP------EVEHYGCMVDLLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNE  235 (331)
Q Consensus       162 ~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  235 (331)
                      .+.++......+++.      ....|.-++-.|.+.|++++|..++-+-.  ++.......+..+.+..+.+...++...
T Consensus       152 ~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~--~~~~~~~~f~e~~~k~~N~e~~~~~i~~  229 (336)
T d1b89a_         152 REHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHP--TDAWKEGQFKDIITKVANVELYYRAIQF  229 (336)
T ss_dssp             HHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHHHHHHH
T ss_pred             HHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcc--hhhhhHHHHHHHHHccCChHHHHHHHHH
Confidence            444443321111100      11234555556666666666665554432  2333345566778888888888887777


Q ss_pred             HHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHH
Q 043124          236 LMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       236 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  269 (331)
                      .++.+|.   ....|+......-+..+..+.+++
T Consensus       230 yL~~~p~---~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         230 YLEFKPL---LLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             HHHHCGG---GHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHHcCHH---HHHHHHHHhccCCCHHHHHHHHHh
Confidence            7776554   446677777777777766666654

>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=98.29  E-value=6.2e-06  Score=60.09  Aligned_cols=118  Identities=14%  Similarity=0.070  Sum_probs=82.6

Q ss_pred             HHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCH-HHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCH
Q 043124          148 VLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLL-EDALELIRSSKFQPNAVIWGALLGGCKLHRNL  226 (331)
Q Consensus       148 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  226 (331)
                      ........|++++|...|.....-+   +....-     .+ ..+.+ .....-++.    -....+..+..++...|++
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l~-----~~-~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW---RGPVLD-----DL-RDFQFVEPFATALVE----DKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC---CSSTTG-----GG-TTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC---cccccc-----cC-cchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCc
Confidence            3346677888888888888877322   211000     00 00010 010111111    1234667788889999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH-----hcCCCCC
Q 043124          227 EIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK-----ELGIEKR  278 (331)
Q Consensus       227 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~  278 (331)
                      ++|...++++++.+|.+...|..++.+|.+.|++++|++.|+++.     +.|+.|.
T Consensus        84 ~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          84 SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             hHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            999999999999999999999999999999999999999999974     4577766

>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=98.27  E-value=6.7e-06  Score=56.35  Aligned_cols=89  Identities=10%  Similarity=0.053  Sum_probs=43.9

Q ss_pred             HHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC---C-------hhhHHHHHHH
Q 043124           47 VLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK---N-------LFCWNSIIEG  116 (331)
Q Consensus        47 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-------~~~~~~li~~  116 (331)
                      +...+...|++++|+..|++.++.+ +.+..++..+..+|.+.|++++|+..+++..+.   +       ..+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444443 223444444444444444444444444443321   1       1234445555


Q ss_pred             HHhCCCHHHHHHHHHHHHHc
Q 043124          117 LAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~  136 (331)
                      +...+++++|++.|++....
T Consensus        89 ~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhc
Confidence            66667777777777666554

>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=98.27  E-value=7e-06  Score=58.21  Aligned_cols=126  Identities=12%  Similarity=-0.088  Sum_probs=88.6

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .+..-+..+.+.|++.+|+..|++.+..-  +..           ..........   ...     .....+|..+..+|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~-----------~~~~~~~~~~---~~~-----~~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFF--IHT-----------EEWDDQILLD---KKK-----NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTC-----------TTCCCHHHHH---HHH-----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cch-----------hhhhhHHHHH---hhh-----hHHHHHHhhHHHHH
Confidence            45566777888888888888888776531  100           0000000000   000     01234677889999


Q ss_pred             HHcCCHHHHHHHHHh-CCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 043124          189 SKAGLLEDALELIRS-SKFQP-NAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYA  255 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~-~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  255 (331)
                      .+.|++++|++.+++ +...| +..+|..+..++...|++++|...|+++++++|++..+...+..+..
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            999999999999987 34455 68899999999999999999999999999999999888665554443

>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=98.23  E-value=7e-06  Score=56.25  Aligned_cols=96  Identities=13%  Similarity=0.147  Sum_probs=79.2

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCC-Cc-----hhHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFD-ID-----VYIGS   80 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~   80 (331)
                      ..+..+...+.+.|++++|+..|++..+.+ +.+...+..+..+|.+.|+++.|+..++++++.... +.     ..+|.
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~   83 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            456678889999999999999999999875 447889999999999999999999999998875311 11     24667


Q ss_pred             HHHHHHHhhCCHHHHHHHHhhcC
Q 043124           81 ALVDMYAKCGSLDRSLLVFFKLR  103 (331)
Q Consensus        81 ~l~~~~~~~g~~~~a~~~~~~~~  103 (331)
                      .+...+...+++++|.+.|+...
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHH
Confidence            77888888999999999987654

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=5.7e-06  Score=53.34  Aligned_cols=83  Identities=7%  Similarity=-0.064  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCC-------cchHHHHHHHHHhcCCchHHHHHHHHHHhcCCCCCCCcc
Q 043124          210 AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNN-------SGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIEKRCPGS  282 (331)
Q Consensus       210 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  282 (331)
                      ...+..+...+.+.|++++|...++++++..|.+       ..++..|+.+|.+.|++++|...+++..+          
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~----------   74 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE----------   74 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH----------
Confidence            3445567888999999999999999998854432       35688899999999999999999999984          


Q ss_pred             ceEEeCCEEEEeecCCCCCCCchHHHHHHHHHHHHHH
Q 043124          283 SWIEMERKVYQFAASDKSHPASDEIYSSLSKLDEQLK  319 (331)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  319 (331)
                                       .+|+++.++..+..+...|.
T Consensus        75 -----------------l~P~~~~a~~Nl~~~~~~l~   94 (95)
T d1tjca_          75 -----------------LDPEHQRANGNLKYFEYIMA   94 (95)
T ss_dssp             -----------------HCTTCHHHHHHHHHHHHHHH
T ss_pred             -----------------hCcCCHHHHHHHHHHHHHhC
Confidence                             35888888888887776654

>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=98.18  E-value=4.9e-07  Score=77.64  Aligned_cols=90  Identities=4%  Similarity=-0.152  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHH
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLL  188 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  188 (331)
                      .+..+...+.+.|+.++|...+.+.....  | ..++..+...+...|++++|...|++..+..  +-+...|+.|...+
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLAILA  196 (497)
T ss_dssp             ---------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHHHHH
Confidence            44444444455555555554444433211  1 1233344444555555555555555544211  22234455555555


Q ss_pred             HHcCCHHHHHHHHHh
Q 043124          189 SKAGLLEDALELIRS  203 (331)
Q Consensus       189 ~~~~~~~~a~~~~~~  203 (331)
                      ...|+..+|...|.+
T Consensus       197 ~~~~~~~~A~~~y~r  211 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCR  211 (497)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHH
Confidence            555555555554443

>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=98.17  E-value=5.6e-05  Score=54.28  Aligned_cols=98  Identities=6%  Similarity=-0.123  Sum_probs=61.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHc---CCCC-----------cHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCC
Q 043124          110 WNSIIEGLAVHGFAHEALAMFDRMIYE---NVEP-----------NGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSIT  175 (331)
Q Consensus       110 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p-----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  175 (331)
                      +...+..+.+.|++++|...|++....   ...+           ....|+.+..++.+.|++++|+..++...+..  +
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~--p   95 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD--S   95 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc--c
Confidence            344455566666666666666554431   0010           12334556667778888888888888877332  4


Q ss_pred             CcHhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc
Q 043124          176 PEVEHYGCMVDLLSKAGLLEDALELIRSS-KFQPN  209 (331)
Q Consensus       176 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~  209 (331)
                      .+...|..+..++...|++++|...|++. .+.|+
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~  130 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ  130 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            45677777788888888888888888763 34554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.98  E-value=4.8e-05  Score=55.20  Aligned_cols=72  Identities=11%  Similarity=0.157  Sum_probs=48.1

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhh----cCCCCCcHhH
Q 043124          108 FCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTC----GYSITPEVEH  180 (331)
Q Consensus       108 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  180 (331)
                      ..+..++..+...|++++|+..++++.+.. +-+...|..++.++...|+.++|.+.|+++.+    ..|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            455666677777777777777777777664 45666777777777777777777777776532    3466666544

>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=97.96  E-value=1.9e-05  Score=55.24  Aligned_cols=128  Identities=12%  Similarity=0.110  Sum_probs=76.5

Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhcc----------CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHA----------GLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      |-+.+.+++|+..|+...+.. |.+...+..+..++...          +.+++|+..|++..+-.  +.+...|..+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~--P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc--chhhHHHhhHHH
Confidence            445566778888888887764 55566666666666543          33456666666665221  223455555555


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHH
Q 043124          187 LLSKAGLLEDALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKI  266 (331)
Q Consensus       187 ~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  266 (331)
                      +|...|++.            ++...         ..+++++|.+.|+++++++|++..++..|...       ..|.++
T Consensus        84 ~y~~~g~~~------------~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~  135 (145)
T d1zu2a1          84 AYTSFAFLT------------PDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQL  135 (145)
T ss_dssp             HHHHHHHHC------------CCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHH
T ss_pred             HHHHcccch------------hhHHH---------HHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHH
Confidence            554433210            11110         12346889999999999999987766555444       456677


Q ss_pred             HHHHHhcCC
Q 043124          267 RVAMKELGI  275 (331)
Q Consensus       267 ~~~m~~~~~  275 (331)
                      +.+..+.|+
T Consensus       136 ~~e~~k~~~  144 (145)
T d1zu2a1         136 HAEAYKQGL  144 (145)
T ss_dssp             HHHHHHSSS
T ss_pred             HHHHHHHhc
Confidence            777766654

>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=97.93  E-value=3.7e-05  Score=54.50  Aligned_cols=63  Identities=11%  Similarity=-0.073  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCC-----------CcchHHHHHHHHHhcCCchHHHHHHHHHHhc
Q 043124          211 VIWGALLGGCKLHRNLEIAHIAVNELMILEPN-----------NSGYCTLLLNMYAEVSRWAEVTKIRVAMKEL  273 (331)
Q Consensus       211 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  273 (331)
                      ..|+.+..+|...|++++|...+++++++.|.           ....+..++.+|...|++++|...|++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45667777788888888888888887763221           1224566788888888888888888887654

>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=97.93  E-value=3.5e-05  Score=59.71  Aligned_cols=127  Identities=11%  Similarity=0.005  Sum_probs=88.3

Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCc-HhHHHHHHHHHHHcCCHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPE-VEHYGCMVDLLSKAGLLE  195 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  195 (331)
                      ..+.|++++|+..+++.++.. |-+...+..+...++..|++++|...|+...+.   .|+ ...+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccH
Confidence            456799999999999999875 667888889999999999999999999998833   444 444544555544444444


Q ss_pred             HHHHHHHhC--CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchH
Q 043124          196 DALELIRSS--KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYC  247 (331)
Q Consensus       196 ~a~~~~~~~--~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  247 (331)
                      ++..-....  ...|+ ..........+...|+.++|.+.++++.+..|.....+
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            433322221  12333 33334444557888999999999999999888866553

>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=97.88  E-value=9.7e-06  Score=56.83  Aligned_cols=49  Identities=12%  Similarity=0.176  Sum_probs=41.0

Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCC-----------chHHHHHHHHHHh
Q 043124          224 RNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSR-----------WAEVTKIRVAMKE  272 (331)
Q Consensus       224 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~a~~~~~~m~~  272 (331)
                      +.+++|...++++++++|++..+|..++.+|...|+           +++|.+.|++..+
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            456789999999999999999999999999987654           5777777777763

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.73  E-value=0.00011  Score=56.81  Aligned_cols=119  Identities=10%  Similarity=-0.066  Sum_probs=75.7

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHH
Q 043124           16 YSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRS   95 (331)
Q Consensus        16 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a   95 (331)
                      ..+.|++++|+..|++..+.. +-|...+..+...++..|++++|...++...+.. +.+...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHH
Confidence            456788888888888888874 4477788888888888888888888888888764 22444555555555444444433


Q ss_pred             HHHHhhc-C--CC-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 043124           96 LLVFFKL-R--EK-NLFCWNSIIEGLAVHGFAHEALAMFDRMIYE  136 (331)
Q Consensus        96 ~~~~~~~-~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  136 (331)
                      ..-...- .  .+ +...+......+...|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            3221111 0  11 1233444455666777788888777777664

>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=97.71  E-value=0.00017  Score=46.08  Aligned_cols=72  Identities=10%  Similarity=-0.020  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHH
Q 043124          180 HYGCMVDLLSKAGLLEDALELIRSS--------KFQPN-AVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLL  250 (331)
Q Consensus       180 ~~~~l~~~~~~~~~~~~a~~~~~~~--------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  250 (331)
                      .+-.+...+.+.|++++|+..|++.        ...++ ..++..+..++.+.|++++|...++++++++|++..++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            3345677788888888888877652        11223 56788899999999999999999999999999998887766


Q ss_pred             H
Q 043124          251 L  251 (331)
Q Consensus       251 ~  251 (331)
                      .
T Consensus        87 ~   87 (95)
T d1tjca_          87 K   87 (95)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=97.63  E-value=0.00019  Score=50.59  Aligned_cols=86  Identities=20%  Similarity=0.124  Sum_probs=42.6

Q ss_pred             HHHccCCchHHHHHHHHHHHhCCC-C----------chhHHHHHHHHHHhhCCHHHHHHHHhhcCC---------C----
Q 043124           50 ACAHLGALDLGREIHLYVMQIGFD-I----------DVYIGSALVDMYAKCGSLDRSLLVFFKLRE---------K----  105 (331)
Q Consensus        50 ~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---------~----  105 (331)
                      .+...|++++|+..|++.++.... |          ....|+.+..+|.+.|++++|.+.+++..+         +    
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            334455566666666555543110 1          123455555555555555555554443321         0    


Q ss_pred             -ChhhHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 043124          106 -NLFCWNSIIEGLAVHGFAHEALAMFDRMIY  135 (331)
Q Consensus       106 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  135 (331)
                       ...+++.+..+|...|++++|+..|++..+
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             012345555666666666666666665543

>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=97.51  E-value=0.014  Score=46.27  Aligned_cols=240  Identities=11%  Similarity=0.103  Sum_probs=139.6

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 043124            7 ISWTTMITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMY   86 (331)
Q Consensus         7 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (331)
                      .-|..++..+.+.++++.|.+++.+.      -+..+|..+...|.+......+     ++.......+......++..|
T Consensus        41 ~d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~y  109 (336)
T d1b89a_          41 SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYY  109 (336)
T ss_dssp             TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHH
Confidence            34677899999999999998887654      2567888888888776655443     222233334555556788888


Q ss_pred             HhhCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH--------HHHHHHHHHHhcc
Q 043124           87 AKCGSLDRSLLVFFKLRE---KNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNG--------VTFISVLSACTHA  155 (331)
Q Consensus        87 ~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--------~~~~~ll~~~~~~  155 (331)
                      -..|.+++...+++....   .+...++.++..|++.+ .++..+.+..... ...+..        ..|.-++-.|.+.
T Consensus       110 e~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         110 QDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             HHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhc
Confidence            888999988888886543   35567788888887754 3444444433211 111111        1234566778888


Q ss_pred             CcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcHHHHHHHHHHH-------------h
Q 043124          156 GLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLEDALELIRS-SKFQPNAVIWGALLGGC-------------K  221 (331)
Q Consensus       156 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~p~~~~~~~l~~~~-------------~  221 (331)
                      |+++.|..+.-.-.      ++..-....+..+.+..+.+...+++.. +..+|+  ..+.++...             .
T Consensus       188 ~~~~~A~~~~i~~~------~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~~p~--~i~~lL~~v~~~~d~~r~V~~~~  259 (336)
T d1b89a_         188 EEYDNAIITMMNHP------TDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPL--LLNDLLMVLSPRLDHTRAVNYFS  259 (336)
T ss_dssp             TCHHHHHHHHHHST------TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHHCGG--GHHHHHHHHGGGCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcc------hhhhhHHHHHHHHHccCChHHHHHHHHHHHHcCHH--HHHHHHHHhccCCCHHHHHHHHH
Confidence            88888876543322      2222233344555555555554444332 111232  223333333             3


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHH
Q 043124          222 LHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVA  269 (331)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  269 (331)
                      +.+++.....+++....  -++..+...|...|...++++.-.+..+.
T Consensus       260 k~~~l~li~p~Le~v~~--~n~~~vn~al~~lyie~~d~~~l~~~i~~  305 (336)
T d1b89a_         260 KVKQLPLVKPYLRSVQN--HNNKSVNESLNNLFITEEDYQALRTSIDA  305 (336)
T ss_dssp             HTTCTTTTHHHHHHHHT--TCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hcCCcHHHHHHHHHHHH--cChHHHHHHHHHHHhCcchhHHHHHHHHH
Confidence            44444444444444322  23446778888999999987765555544

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.85  E-value=0.006  Score=40.21  Aligned_cols=63  Identities=3%  Similarity=-0.106  Sum_probs=32.9

Q ss_pred             cHHHHHHHHHHHhhcC---CHHHHHHHHHHHHhcCCCCc-chHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          209 NAVIWGALLGGCKLHR---NLEIAHIAVNELMILEPNNS-GYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       209 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      +..+--....+++++.   +.+++..+++++.+.+|.+. ..+..|..+|.+.|++++|...++.+.
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L  100 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  100 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3334333444444332   34455666666655555432 344455666666666666666666655

>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=96.77  E-value=0.017  Score=38.86  Aligned_cols=109  Identities=8%  Similarity=-0.062  Sum_probs=56.3

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----hCCHHHHH
Q 043124           21 QFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVDMYAK----CGSLDRSL   96 (331)
Q Consensus        21 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~   96 (331)
                      ++++|+..|++..+.|.   ...+..|..  ....+.++|...+++..+.|   +...+..|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            56777888877777652   223333322  23456677777777766665   33444445555443    23455555


Q ss_pred             HHHhhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHHHHHHHHcC
Q 043124           97 LVFFKLREK-NLFCWNSIIEGLAV----HGFAHEALAMFDRMIYEN  137 (331)
Q Consensus        97 ~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  137 (331)
                      ++|++..+. ++.+...|...|..    ..+.++|.+.|++..+.|
T Consensus        80 ~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            555554332 33444444444433    234555555555554444

>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=96.26  E-value=0.07  Score=34.84  Aligned_cols=142  Identities=8%  Similarity=0.008  Sum_probs=97.7

Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHHHHHHcCCHHH
Q 043124          117 LAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVDLLSKAGLLED  196 (331)
Q Consensus       117 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  196 (331)
                      +...|..++..++..+....   .+..-||.++.-....-+-+...++++.+-+-+.+.              ..++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls--------------~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCch--------------hhhcHHH
Confidence            44567777777777777654   345556666666666666666677777666433332              3344444


Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHHhcCCC
Q 043124          197 ALELIRSSKFQPNAVIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMKELGIE  276 (331)
Q Consensus       197 a~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  276 (331)
                      ....+-.++  .+...+...+..+..+|+-+.-.++.+.+.+...-++.+...+..+|.+.|...++.+++.+.-+.|+.
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            455554444  233455667778889999999999999977755444777788999999999999999999999998875


Q ss_pred             C
Q 043124          277 K  277 (331)
Q Consensus       277 ~  277 (331)
                      .
T Consensus       153 e  153 (161)
T d1wy6a1         153 E  153 (161)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.96  E-value=0.062  Score=35.87  Aligned_cols=107  Identities=7%  Similarity=-0.113  Sum_probs=56.6

Q ss_pred             CCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhhCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHH
Q 043124           55 GALDLGREIHLYVMQIGFDIDVYIGSALVDMYAKCGSLDRSLLVFFKLREK-NLFCWNSIIEGLAV----HGFAHEALAM  129 (331)
Q Consensus        55 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~  129 (331)
                      .|+++|...|++..+.|.   ...+..|..  ....+.++|.+.+++..+. ++.+...|...|..    ..+.++|.+.
T Consensus         7 kd~~~A~~~~~kaa~~g~---~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~   81 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE---MFGCLSLVS--NSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   81 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC---TTHHHHHHT--CTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHCCC---hhhhhhhcc--ccccCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHH
Confidence            367788888888877763   222333322  2334566666666655433 44455555555543    3456666666


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHhc----cCcHHHHHHHHHhhh
Q 043124          130 FDRMIYENVEPNGVTFISVLSACTH----AGLVEEGRRRFLSMT  169 (331)
Q Consensus       130 ~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~  169 (331)
                      |++..+.|.   +.....|...|..    ..+.++|..+|+...
T Consensus        82 ~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa  122 (133)
T d1klxa_          82 YSKACGLND---QDGCLILGYKQYAGKGVVKNEKQAVKTFEKAC  122 (133)
T ss_dssp             HHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HhhhhccCc---chHHHHHHHHHHcCCccCCCHHHHHHHHHHHH
Confidence            666666552   2222223333322    345666666666655

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.03  E-value=0.71  Score=37.72  Aligned_cols=246  Identities=9%  Similarity=-0.028  Sum_probs=115.1

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCC-----------------CCc
Q 043124           13 ITCYSQNKQFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGF-----------------DID   75 (331)
Q Consensus        13 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------------~~~   75 (331)
                      +..+.+.+++...+..+.     ..+++...-.....+....|+...|......+-..|.                 ..+
T Consensus        79 l~~L~~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~~~lt  153 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQD  153 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSC
T ss_pred             HHHHHhccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCC
Confidence            456677777766554331     1234455445556666667776666655544433221                 122


Q ss_pred             hhHHHHHHHHHHhhCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhc-
Q 043124           76 VYIGSALVDMYAKCGSLDRSLLVFFKLREKNLFCWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTH-  154 (331)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-  154 (331)
                      ...+-.-+......|+...|..+...+...........+.....   ...+......     .+++......+..++.+ 
T Consensus       154 ~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~-----~~~~~~~~~~~~~~l~rl  225 (450)
T d1qsaa1         154 PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART-----TGATDFTRQMAAVAFASV  225 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH-----SCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc-----CCCChhhhHHHHHHHHHH
Confidence            22333344455556667777776666554333333333333222   2222221111     12222222222222222 


Q ss_pred             -cCcHHHHHHHHHhhhhcCCCCCcHhH--HHHHHHHHHHcCCHHHHHHHHHhCC-CCCcHHHHHHHHHHHhhcCCHHHHH
Q 043124          155 -AGLVEEGRRRFLSMTCGYSITPEVEH--YGCMVDLLSKAGLLEDALELIRSSK-FQPNAVIWGALLGGCKLHRNLEIAH  230 (331)
Q Consensus       155 -~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~  230 (331)
                       ..+.+.|..++..........++...  ...+...+...+..+.+...+.... ...+.......+......+++..+.
T Consensus       226 a~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~  305 (450)
T d1qsaa1         226 ARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLN  305 (450)
T ss_dssp             HHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHH
Confidence             24566666666666543333322111  1111122223455566655554422 2233333344444455566777777


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhcCCchHHHHHHHHHH
Q 043124          231 IAVNELMILEPNNSGYCTLLLNMYAEVSRWAEVTKIRVAMK  271 (331)
Q Consensus       231 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  271 (331)
                      ..++.+-...........=+++++...|+.+.|...|....
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            66665533222222222335667777777777777777654

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.75  E-value=0.29  Score=31.87  Aligned_cols=64  Identities=11%  Similarity=0.139  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCC
Q 043124          109 CWNSIIEGLAVHGFAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSI  174 (331)
Q Consensus       109 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  174 (331)
                      ..+..+..+..+|+-+.-.++++.+.+.+ .|++.....+..+|.+.|+..++..++++.- +.|+
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~AC-e~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEAC-KKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH-HHhH
Confidence            44556677788888888888888876654 6777777778888888888888888888776 4454

>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=94.03  E-value=0.33  Score=31.62  Aligned_cols=71  Identities=15%  Similarity=-0.007  Sum_probs=47.8

Q ss_pred             CcHhHHHHHHHHHHHcCC---HHHHHHHHHhCC-CCC-cH-HHHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCcch
Q 043124          176 PEVEHYGCMVDLLSKAGL---LEDALELIRSSK-FQP-NA-VIWGALLGGCKLHRNLEIAHIAVNELMILEPNNSGY  246 (331)
Q Consensus       176 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~-~~p-~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  246 (331)
                      +++.+--....+++++.+   .++++.+++++- ..| +. ..+..|..+|.+.|++++|.+.++.+++++|++..+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            444454455666666543   456777776532 234 32 455667777888999999999999999999987766

>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=93.46  E-value=0.45  Score=29.25  Aligned_cols=63  Identities=16%  Similarity=0.177  Sum_probs=49.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHHHccCCchHHHHHHHHHHHhCCCCchhHHHHHHH
Q 043124           21 QFREALDAFNEMKNSGISPDQVTMATVLSACAHLGALDLGREIHLYVMQIGFDIDVYIGSALVD   84 (331)
Q Consensus        21 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   84 (331)
                      +.-++.+-++.+....+.|++....+.+.+|.+.+++..|.++++-.+... .++..+|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHH
Confidence            555677888888888889999999999999999999999999998877653 344566666553

>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=93.35  E-value=0.27  Score=30.26  Aligned_cols=63  Identities=14%  Similarity=0.099  Sum_probs=49.7

Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccCcHHHHHHHHHhhhhcCCCCCcHhHHHHHHH
Q 043124          122 FAHEALAMFDRMIYENVEPNGVTFISVLSACTHAGLVEEGRRRFLSMTCGYSITPEVEHYGCMVD  186 (331)
Q Consensus       122 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  186 (331)
                      +.-++.+-++.+...+..|++....+.+++|.+.+++..|.++|+.++.+.+.  +...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~--~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--cHHHHHHHHH
Confidence            45677778888888888899999999999999999999999999998865543  3446665553