Citrus Sinensis ID: 038490

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340----
Protein Sequence
KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC
Secondary Structure (PSIPRED)
cccHHHHHHHHHcccccHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHccccHHHHHHHHccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
kptssirlaclprlqkdpklalqlfknpnpnpndteahplkpfrynlLHYDLIITKLGRAKMFDEMQQILHQLKhdtrivpkeiIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTllnpkltcgkLDRMKELFQIMEKyvspdacsynilIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRvynvkpdgQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMkergckpnsvtYNALISGFCKEEDFEAAFTILDEmgdkgckanpisYNVIlgglckdgkc
Flexible Loop (DISEMBL)
kptssirlaclprlqkdpKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQlkhdtrivpKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKrrlqptlvtfGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKemkergckpnSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNvilgglckdgkc
Low Complexity Region (SEG)
KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC
Disordered region (IsUnstruct)
***************************************LKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK****
Disordered Region (DISOPRED)
KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC
Disordered Region (DISEMBL)
KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC
Disordered Region (DISPRO)
*PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDG**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC
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	344	2.2.26 [Sep-21-2011]
Q9MAG8	471	Putative pentatricopeptid	yes	no	0.965	0.704	0.574	1e-106
Q9LQQ1	459	Pentatricopeptide repeat-	no	no	0.909	0.681	0.328	5e-41
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.901	0.488	0.303	2e-33
Q9SS81	687	Pentatricopeptide repeat-	no	no	0.921	0.461	0.284	3e-33
O49436	660	Pentatricopeptide repeat-	no	no	0.813	0.424	0.311	4e-33
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.813	0.468	0.314	6e-33
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.860	0.469	0.287	1e-32
Q9FJE6	907	Putative pentatricopeptid	no	no	0.773	0.293	0.302	1e-32
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.959	0.699	0.302	2e-32
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.729	0.332	0.361	3e-32

>sp|Q9MAG8|PPR79_ARATH Putative pentatricopeptide repeat-containing protein At1g53330 OS=Arabidopsis thaliana GN=At1g53330 PE=3 SV=1

 Score =  384 bits (987), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 193/336 (57%), Positives = 250/336 (74%), Gaps = 4/336 (1%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           K  SS RLA L R + DP  A++LF+NP+P       +P +PFRY+LL YD+IITKLG +
Sbjct: 5   KSVSSFRLASLLRRENDPSAAMKLFRNPDPE----STNPKRPFRYSLLCYDIIITKLGGS 60

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMFDE+ Q+L  LK DTRIVP EIIFCNVI F+GR +L  RAL MFDEM  +  Q TVK 
Sbjct: 61  KMFDELDQVLLHLKTDTRIVPTEIIFCNVINFFGRGKLPSRALHMFDEMPQYRCQRTVKS 120

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
            N+LL+  L CG+L++MKE    ++++  PDAC+YNILIHGC  S   +DA K+FDEMVK
Sbjct: 121 LNSLLSALLKCGELEKMKERLSSIDEFGKPDACTYNILIHGCSQSGCFDDALKLFDEMVK 180

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           ++++PT VTFGTLI+GLC + RV EALK+K D+++VY V+P   ++ASLIK LC +GELS
Sbjct: 181 KKVKPTGVTFGTLIHGLCKDSRVKEALKMKHDMLKVYGVRPTVHIYASLIKALCQIGELS 240

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
            A  +K+E    KI++DA IYS+LIS+L KAGR NE   IL+EM E+GCKP++VTYN LI
Sbjct: 241 FAFKLKDEAYEGKIKVDAAIYSTLISSLIKAGRSNEVSMILEEMSEKGCKPDTVTYNVLI 300

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG 336
           +GFC E D E+A  +LDEM +KG K + ISYN+ILG
Sbjct: 301 NGFCVENDSESANRVLDEMVEKGLKPDVISYNMILG 336

Involved during embryo development.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQQ1|PPR20_ARATH Pentatricopeptide repeat-containing protein At1g07740, mitochondrial OS=Arabidopsis thaliana GN=At1g07740 PE=2 SV=1

 Score =  168 bits (426), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 107/326 (32%), Positives = 181/326 (55%), Gaps = 13/326 (3%)

Query: 16  KDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKH 75
           +DP+ AL LF            +    FR++   Y  +I KL +++ FD + QIL  +++
Sbjct: 60  EDPEEALSLF----------HQYQEMGFRHDYPSYSSLIYKLAKSRNFDAVDQILRLVRY 109

Query: 76  DTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLD 135
              +  +E +F  +I  YG+A  +++A+ +F +++SF+   T++  NTL+N  +  G+L+
Sbjct: 110 RN-VRCRESLFMGLIQHYGKAGSVDKAIDVFHKITSFDCVRTIQSLNTLINVLVDNGELE 168

Query: 136 RMKELFQ-IMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI 194
           + K  F    +  + P++ S+NILI G +     E A KVFDEM++  +QP++VT+ +LI
Sbjct: 169 KAKSFFDGAKDMRLRPNSVSFNILIKGFLDKCDWEAACKVFDEMLEMEVQPSVVTYNSLI 228

Query: 195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI 254
             LC    + +A  L ED+++   ++P+   F  L+KGLC  GE + A  +  +M     
Sbjct: 229 GFLCRNDDMGKAKSLLEDMIK-KRIRPNAVTFGLLMKGLCCKGEYNEAKKLMFDMEYRGC 287

Query: 255 EMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFT 314
           +     Y  L+S L K GR +E   +L EMK+R  KP+ V YN L++  C E     A+ 
Sbjct: 288 KPGLVNYGILMSDLGKRGRIDEAKLLLGEMKKRRIKPDVVIYNILVNHLCTECRVPEAYR 347

Query: 315 ILDEMGDKGCKANPISYNVILGGLCK 340
           +L EM  KGCK N  +Y +++ G C+
Sbjct: 348 VLTEMQMKGCKPNAATYRMMIDGFCR 373

Arabidopsis thaliana (taxid: 3702)

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

 Score =  143 bits (361), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 98/323 (30%), Positives = 169/323 (52%), Gaps = 13/323 (4%)

Query: 21  ALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV 80
           AL LFK       + E   ++P   N++ Y  +I+ L     + +  Q+L  +  + +I 
Sbjct: 279 ALNLFK-------EMETKGIRP---NVVTYSSLISCLCSYGRWSDASQLLSDMI-EKKIN 327

Query: 81  PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKEL 140
           P  + F  +I  + +      A +++D+M   ++   +  +N+L+N      +LD+ K++
Sbjct: 328 PNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQM 387

Query: 141 FQIM-EKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL 199
           F+ M  K   PD  +YN LI G   S+R+ED  ++F EM  R L    VT+ TLI GL  
Sbjct: 388 FEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFH 447

Query: 200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAG 259
           +   D A K+ +  M    V PD   ++ L+ GLC  G+L  AL V + M + +I++D  
Sbjct: 448 DGDCDNAQKVFKQ-MVSDGVPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIY 506

Query: 260 IYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM 319
           IY+++I  + KAG+ ++   +   +  +G KPN VTYN +ISG C +   + A+ +L +M
Sbjct: 507 IYTTMIEGMCKAGKVDDGWDLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKM 566

Query: 320 GDKGCKANPISYNVILGGLCKDG 342
            + G   N  +YN ++    +DG
Sbjct: 567 KEDGPLPNSGTYNTLIRAHLRDG 589

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS81|PP221_ARATH Pentatricopeptide repeat-containing protein At3g09060 OS=Arabidopsis thaliana GN=At3g09060 PE=2 SV=1

 Score =  142 bits (359), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 94/330 (28%), Positives = 173/330 (52%), Gaps = 13/330 (3%)

Query: 15  QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLK 74
           +KD K A++L+        D+  +P      N+  ++++I+ L +    D+  +I  ++K
Sbjct: 232 EKDHKTAMELWDRL---LEDSSVYP------NVKTHNIMISGLSKCGRVDDCLKIWERMK 282

Query: 75  HDTRIVPKEI-IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK 133
            + R   K++  + ++I     A  +++A  +F+E+      + V  +NT+L     CGK
Sbjct: 283 QNER--EKDLYTYSSLIHGLCDAGNVDKAESVFNELDERKASIDVVTYNTMLGGFCRCGK 340

Query: 134 LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTL 193
           +    EL++IME   S +  SYNILI G + + ++++A  ++  M  +       T+G  
Sbjct: 341 IKESLELWRIMEHKNSVNIVSYNILIKGLLENGKIDEATMIWRLMPAKGYAADKTTYGIF 400

Query: 194 IYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK 253
           I+GLC+   V++AL + +++        D   +AS+I  LC    L  A  + +EM +  
Sbjct: 401 IHGLCVNGYVNKALGVMQEV-ESSGGHLDVYAYASIIDCLCKKKRLEEASNLVKEMSKHG 459

Query: 254 IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAF 313
           +E+++ + ++LI  L +  R  E    L+EM + GC+P  V+YN LI G CK   F  A 
Sbjct: 460 VELNSHVCNALIGGLIRDSRLGEASFFLREMGKNGCRPTVVSYNILICGLCKAGKFGEAS 519

Query: 314 TILDEMGDKGCKANPISYNVILGGLCKDGK 343
             + EM + G K +  +Y+++L GLC+D K
Sbjct: 520 AFVKEMLENGWKPDLKTYSILLCGLCRDRK 549

Arabidopsis thaliana (taxid: 3702)

>sp|O49436|PP327_ARATH Pentatricopeptide repeat-containing protein At4g20090 OS=Arabidopsis thaliana GN=EMB1025 PE=3 SV=1

 Score =  142 bits (358), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 100/321 (31%), Positives = 161/321 (50%), Gaps = 41/321 (12%)

Query: 63  FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEM-SSFNVQMTVKFF 121
           FD ++++L +++ + R++  E  F  V   YG+A L ++A+ +F  M   F  + +VK F
Sbjct: 93  FDSVEKLLSRIRLENRVII-ERSFIVVFRAYGKAHLPDKAVDLFHRMVDEFRCKRSVKSF 151

Query: 122 NTLLNPKLTCGKLDRMKELFQI-----MEKYVSPDACSYNILIHGCVVSRRLEDAWKVFD 176
           N++LN  +  G   R  E +       M   +SP+  S+N++I      R ++ A +VF 
Sbjct: 152 NSVLNVIINEGLYHRGLEFYDYVVNSNMNMNISPNGLSFNLVIKALCKLRFVDRAIEVFR 211

Query: 177 EMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMR--------VYNVKPDG----- 223
            M +R+  P   T+ TL+ GLC E R+DEA+ L +++          +YNV  DG     
Sbjct: 212 GMPERKCLPDGYTYCTLMDGLCKEERIDEAVLLLDEMQSEGCSPSPVIYNVLIDGLCKKG 271

Query: 224 ---------------------QVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYS 262
                                  + +LI GLC  G+L  A+ + E MV  K   +   Y 
Sbjct: 272 DLTRVTKLVDNMFLKGCVPNEVTYNTLIHGLCLKGKLDKAVSLLERMVSSKCIPNDVTYG 331

Query: 263 SLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK 322
           +LI+ L K  R  +   +L  M+ERG   N   Y+ LISG  KE   E A ++  +M +K
Sbjct: 332 TLINGLVKQRRATDAVRLLSSMEERGYHLNQHIYSVLISGLFKEGKAEEAMSLWRKMAEK 391

Query: 323 GCKANPISYNVILGGLCKDGK 343
           GCK N + Y+V++ GLC++GK
Sbjct: 392 GCKPNIVVYSVLVDGLCREGK 412

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  141 bits (356), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 91/289 (31%), Positives = 150/289 (51%), Gaps = 9/289 (3%)

Query: 56  KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQ 115
           +LG+ +   ++ +IL      +  VP  I +  +I  Y +A  +  AL + D MS   V 
Sbjct: 149 RLGKTRKAAKILEILE----GSGAVPDVITYNVMISGYCKAGEINNALSVLDRMS---VS 201

Query: 116 MTVKFFNTLLNPKLTCGKLDR-MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV 174
             V  +NT+L      GKL + M+ L +++++   PD  +Y ILI        +  A K+
Sbjct: 202 PDVVTYNTILRSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEATCRDSGVGHAMKL 261

Query: 175 FDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC 234
            DEM  R   P +VT+  L+ G+C E R+DEA+K   D M     +P+      +++ +C
Sbjct: 262 LDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLND-MPSSGCQPNVITHNIILRSMC 320

Query: 235 AVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSV 294
           + G    A  +  +M+R         ++ LI+ L + G       IL++M + GC+PNS+
Sbjct: 321 STGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSL 380

Query: 295 TYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           +YN L+ GFCKE+  + A   L+ M  +GC  + ++YN +L  LCKDGK
Sbjct: 381 SYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGK 429

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  140 bits (354), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 86/299 (28%), Positives = 160/299 (53%), Gaps = 3/299 (1%)

Query: 46  NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQM 105
           +L+ Y +++  L +    D    +L++++   ++ P  +I+  +I    + + ++ AL +
Sbjct: 220 DLVTYGVVVNGLCKRGDTDLAFNLLNKMEQG-KLEPGVLIYNTIIDGLCKYKHMDDALNL 278

Query: 106 FDEMSSFNVQMTVKFFNTLLNPKLTCGKL-DRMKELFQIMEKYVSPDACSYNILIHGCVV 164
           F EM +  ++  V  +++L++     G+  D  + L  ++E+ ++PD  +++ LI   V 
Sbjct: 279 FKEMETKGIRPNVVTYSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVK 338

Query: 165 SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ 224
             +L +A K++DEMVKR + P++VT+ +LI G C+  R+DEA ++ E  M   +  PD  
Sbjct: 339 EGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFE-FMVSKHCFPDVV 397

Query: 225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM 284
            + +LIKG C    +   + V  EM +  +  +   Y+ LI  LF+AG  +    I KEM
Sbjct: 398 TYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEM 457

Query: 285 KERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
              G  PN +TYN L+ G CK    E A  + + +     +    +YN+++ G+CK GK
Sbjct: 458 VSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGK 516

Arabidopsis thaliana (taxid: 3702)

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

 Score =  140 bits (353), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 81/268 (30%), Positives = 142/268 (52%), Gaps = 2/268 (0%)

Query: 76  DTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLD 135
           + ++ P  + + +++G Y     + +AL+++ EM+   +  ++  F TLL+     G + 
Sbjct: 465 NKKLEPTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIR 524

Query: 136 RMKELFQIMEKY-VSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI 194
              +LF  M ++ V P+  +YN++I G      +  A++   EM ++ + P   ++  LI
Sbjct: 525 DAVKLFNEMAEWNVKPNRVTYNVMIEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLI 584

Query: 195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI 254
           +GLCL  +  EA K+  D +   N + +   +  L+ G C  G+L  AL V +EMV+  +
Sbjct: 585 HGLCLTGQASEA-KVFVDGLHKGNCELNEICYTGLLHGFCREGKLEEALSVCQEMVQRGV 643

Query: 255 EMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFT 314
           ++D   Y  LI    K   +  F  +LKEM +RG KP+ V Y ++I    K  DF+ AF 
Sbjct: 644 DLDLVCYGVLIDGSLKHKDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAKSKTGDFKEAFG 703

Query: 315 ILDEMGDKGCKANPISYNVILGGLCKDG 342
           I D M ++GC  N ++Y  ++ GLCK G
Sbjct: 704 IWDLMINEGCVPNEVTYTAVINGLCKAG 731

Arabidopsis thaliana (taxid: 3702)

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

 Score =  140 bits (353), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 104/344 (30%), Positives = 167/344 (48%), Gaps = 14/344 (4%)

Query: 2   PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAK 61
           P+  I+L    R +KD + ++ +F +      +   H    F Y +L       +L  A 
Sbjct: 16  PSQVIKLM---RAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVL-------RLVSAN 65

Query: 62  MFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFF 121
            F   + ++ ++K +  +V ++I+     G YGR      +L++F +M  F+   + K +
Sbjct: 66  KFKAAEDLIVRMKIENCVVSEDILLSICRG-YGRVHRPFDSLRVFHKMKDFDCDPSQKAY 124

Query: 122 NTLLNPKLTCGKLDRMKELFQIM-EKYVSPDACSYNILIHG-CVVSRRLEDAWKVFDEMV 179
            T+L   +   +L+   + ++ M E  + P   S N+LI   C     ++   K+F EM 
Sbjct: 125 VTVLAILVEENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMP 184

Query: 180 KRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL 239
           KR   P   T+GTLI GLC   R+DEA KL  +++   +  P    + SLI GLC    +
Sbjct: 185 KRGCDPDSYTYGTLISGLCRFGRIDEAKKLFTEMVE-KDCAPTVVTYTSLINGLCGSKNV 243

Query: 240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNAL 299
             A+   EEM    IE +   YSSL+  L K GR  +   + + M  RGC+PN VTY  L
Sbjct: 244 DEAMRYLEEMKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTTL 303

Query: 300 ISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           I+G CKE+  + A  +LD M  +G K +   Y  ++ G C   K
Sbjct: 304 ITGLCKEQKIQEAVELLDRMNLQGLKPDAGLYGKVISGFCAISK 347

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  139 bits (351), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 95/263 (36%), Positives = 136/263 (51%), Gaps = 12/263 (4%)

Query: 85  IFCNVI--GFYGRARLLERALQMFDEMSS----FNVQMTVKFFNTLLNPKLTCGKLDRMK 138
           +  NVI  GF    R+ E AL    EMS+    F  Q T   FNTL+N     G +    
Sbjct: 260 VSVNVIVHGFCKEGRV-EDALNFIQEMSNQDGFFPDQYT---FNTLVNGLCKAGHVKHAI 315

Query: 139 ELFQIM-EKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGL 197
           E+  +M ++   PD  +YN +I G      +++A +V D+M+ R   P  VT+ TLI  L
Sbjct: 316 EIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTL 375

Query: 198 CLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD 257
           C E +V+EA +L   ++    + PD   F SLI+GLC      +A+ + EEM     E D
Sbjct: 376 CKENQVEEATELAR-VLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPD 434

Query: 258 AGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILD 317
              Y+ LI +L   G+ +E   +LK+M+  GC  + +TYN LI GFCK      A  I D
Sbjct: 435 EFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFD 494

Query: 318 EMGDKGCKANPISYNVILGGLCK 340
           EM   G   N ++YN ++ GLCK
Sbjct: 495 EMEVHGVSRNSVTYNTLIDGLCK 517

May be involved in female gametophyte development.

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	344
225461712	464	PREDICTED: putative pentatricopeptide re	0.973	0.721	0.588	1e-112
224117008	461	predicted protein [Populus trichocarpa]	0.979	0.731	0.597	1e-111
147840993	418	hypothetical protein VITISV_037241 [Viti	0.973	0.801	0.588	1e-111
449456681	527	PREDICTED: putative pentatricopeptide re	0.985	0.643	0.559	1e-109
255576901	610	pentatricopeptide repeat-containing prot	0.979	0.552	0.583	1e-108
297847728	472	pentatricopeptide repeat-containing prot	0.970	0.707	0.571	1e-105
15219274	471	pentatricopeptide repeat-containing prot	0.965	0.704	0.574	1e-104
449532274	394	PREDICTED: putative pentatricopeptide re	0.683	0.596	0.528	3e-83
224161575	230	predicted protein [Populus trichocarpa]	0.656	0.982	0.594	3e-71
356514549	465	PREDICTED: putative pentatricopeptide re	0.982	0.726	0.454	2e-69

>gi|225461712|ref|XP_002283237.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g53330-like [Vitis vinifera]

 Score =  411 bits (1057), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 202/343 (58%), Positives = 263/343 (76%), Gaps = 8/343 (2%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           KP S  RL+ L RLQ DPKLALQLF+NPNP+P        KPFRY  L YDLIITKLGR+
Sbjct: 5   KPISPFRLSSLLRLQNDPKLALQLFQNPNPDP--------KPFRYTHLSYDLIITKLGRS 56

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           +MF EM+QIL QL+ +TR  PKEIIFCNVI FYGRARL +RA+Q F+ +  F  Q TVK 
Sbjct: 57  RMFHEMEQILSQLRRETRFSPKEIIFCNVISFYGRARLPDRAIQTFESIPEFRCQRTVKS 116

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
            N+LLN  L C + ++   +   ++K+ +PD C+YN+LI+ C  S  L DAW VFDEM++
Sbjct: 117 LNSLLNALLKCKEFEKFDGILSGIDKFATPDVCTYNVLINACCSSGSLGDAWNVFDEMLR 176

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           + + P +VTFGTLI GLC + R+DEA +LKED+++V+NVKP+  V+ASL+KGLC V ELS
Sbjct: 177 KHVCPNVVTFGTLISGLCGDSRLDEAFRLKEDMVKVFNVKPNAFVYASLMKGLCRVNELS 236

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
           LA  +K+EMV +K+ +D+GIYS+LI+ALFK GRK+E   +L+EM+E GCKP++VTYNA+I
Sbjct: 237 LAFELKKEMVANKLRLDSGIYSTLIAALFKVGRKDEVFVVLEEMRENGCKPDTVTYNAMI 296

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           SGFC E+DFEAA+ +L+EM  KGCK + ISYNVI+ GLCK+GK
Sbjct: 297 SGFCNEKDFEAAYGVLEEMVAKGCKPDVISYNVIISGLCKEGK 339

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117008|ref|XP_002317451.1| predicted protein [Populus trichocarpa] gi|222860516|gb|EEE98063.1| predicted protein [Populus trichocarpa]

 Score =  409 bits (1051), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 205/343 (59%), Positives = 258/343 (75%), Gaps = 6/343 (1%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           +P +  RLA L RLQKDPKLALQLFKNPNP        P KPFRY+LL YDLIITKLGRA
Sbjct: 5   RPITPFRLASLLRLQKDPKLALQLFKNPNPK------TPSKPFRYSLLSYDLIITKLGRA 58

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMF+EMQ+IL QLK +T   PKE +FC++I FYGRARL E AL++  E+ SF VQ TVK 
Sbjct: 59  KMFNEMQEILAQLKEETLFTPKEALFCDIINFYGRARLPENALKLLVELPSFRVQRTVKS 118

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
           +N+LL+  L C   D+M+ELF  +EK    DAC+YN+LI G   S RL+DA KVFDEM  
Sbjct: 119 YNSLLSVFLMCKDFDKMRELFVGIEKLGKADACTYNLLIRGFCASGRLDDASKVFDEMTN 178

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           R + P ++TFG LIYG CL LR+ EA KLK D+++VY V P+  ++ASLIKG+C  GELS
Sbjct: 179 RGVSPNVITFGNLIYGFCLHLRLKEAFKLKTDMVKVYRVYPNAYIYASLIKGVCKNGELS 238

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
           LA  +K+EM+R+KIE+D  IYS+LIS LFKAGRK E   + ++MKERG KP++VTYN +I
Sbjct: 239 LAFRLKKEMIRNKIELDPAIYSTLISGLFKAGRKEEALGVWEDMKERGYKPDTVTYNVII 298

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           + FCK++DFEAA+ +LDEM +KGCK + ISYNVIL  L ++GK
Sbjct: 299 NLFCKDKDFEAAYRLLDEMVEKGCKPDVISYNVILRELFEEGK 341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147840993|emb|CAN64120.1| hypothetical protein VITISV_037241 [Vitis vinifera]

 Score =  409 bits (1050), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 202/343 (58%), Positives = 264/343 (76%), Gaps = 8/343 (2%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           KP S  RL+ L RLQ  PKLALQLF+NPNP+P        KPFRY  L YDLIITKLGR+
Sbjct: 5   KPISPFRLSSLLRLQNGPKLALQLFQNPNPDP--------KPFRYTHLSYDLIITKLGRS 56

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           +MF EM+QIL QL+ +TR  PKEIIFCNVI FYGRARL +RA+Q F+ +  F  Q TVK 
Sbjct: 57  RMFHEMEQILSQLRRETRFSPKEIIFCNVISFYGRARLPDRAIQTFESIPEFRCQRTVKS 116

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
            N+LLN  L C + ++   +   ++K+ +P+ C+YNILI+ C +S RL DAW VFDEM++
Sbjct: 117 LNSLLNALLNCKEFEKFDGILSGIDKFATPNVCTYNILINACCLSGRLGDAWNVFDEMLR 176

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           + + P +VTFGTLI GLC + R+DEA +LKED+++V+NVKP+  V+ASL+KGLC V ELS
Sbjct: 177 KHVCPNVVTFGTLISGLCRDSRLDEASRLKEDMVKVFNVKPNAFVYASLMKGLCRVNELS 236

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
           LA  +K+EMV +K+ +D+GIYS+LI+ALFK GRK+E   +L+EM+E GCKP++VTYNA+I
Sbjct: 237 LAFELKKEMVANKLRLDSGIYSTLIAALFKVGRKDEVFVVLEEMRENGCKPDTVTYNAMI 296

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           SGFC E+DFEAA+ +L+EM  KGCK + ISYNVI+ GLCK+GK
Sbjct: 297 SGFCNEKDFEAAYGVLEEMVVKGCKPDVISYNVIISGLCKEGK 339

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456681|ref|XP_004146077.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g53330-like [Cucumis sativus]

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/343 (55%), Positives = 252/343 (73%), Gaps = 4/343 (1%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           KP S  RL+ L RLQKDP LALQLF NPNP    + + P KPFRY+LL YDLII+KLGRA
Sbjct: 73  KPISPFRLSSLLRLQKDPTLALQLFLNPNP----SSSEPPKPFRYSLLSYDLIISKLGRA 128

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMFDEM++IL QLK +TR  P E+IFCNVI FYGRA L +RA Q+F+ + SF  + TVK 
Sbjct: 129 KMFDEMEEILQQLKQETRFAPHEVIFCNVIAFYGRAHLPDRAFQVFERIPSFRCKRTVKS 188

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
            N+LL   L   +L++M ++F  +  Y SPDAC++NILIH   +   L+  W VFDEM K
Sbjct: 189 VNSLLAALLKNRQLEKMTQVFVDISNYGSPDACTFNILIHAACLCGDLDAVWGVFDEMQK 248

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           R ++P +VTFGTLIYGL L  ++ EAL+LKED+++VY +KP+  ++ +LIKG C VGEL+
Sbjct: 249 RGVKPNVVTFGTLIYGLSLNSKLKEALRLKEDMVKVYMIKPNASIYTTLIKGFCGVGELN 308

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
            A  +KEEMV   +++ + +YS+LISALFK GRK E   IL+EM E GCKP++VTYNA+I
Sbjct: 309 FAFKLKEEMVTSNVKLVSAVYSTLISALFKHGRKEEVSDILREMGENGCKPDTVTYNAII 368

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           +G CKE D E+A  ++DEM +KGCK +  S+N I+G LCK+GK
Sbjct: 369 NGHCKENDLESAHRVMDEMVEKGCKPDVFSFNTIIGWLCKEGK 411

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576901|ref|XP_002529336.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223531207|gb|EEF33053.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 200/343 (58%), Positives = 255/343 (74%), Gaps = 6/343 (1%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           K  SS RLA L RLQ+DPKLAL LF++PN NPN       KPFRY+LL YDL+ITKLGRA
Sbjct: 7   KRISSFRLASLLRLQEDPKLALHLFQHPNSNPNP------KPFRYSLLCYDLMITKLGRA 60

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMF EM+QIL Q K  TR+V KE +FCN+I FYGRA L + AL+MFDEM  +  Q T+K 
Sbjct: 61  KMFHEMEQILLQFKTQTRLVAKEPLFCNIITFYGRAGLPQNALKMFDEMPLYRCQRTIKS 120

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
           +NTLLN  + C + D M+E F  ++++V PD C++NI+I G     R++DA KV DEM  
Sbjct: 121 YNTLLNVLMICKEFDVMREHFVNIKRHVKPDGCTFNIMIRGLCSDGRVDDALKVLDEMKN 180

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           R L P  VTFGTLIYGLCL L++ EA KLK+ ++ V+ + P+  V+A+LIKGLCAVGELS
Sbjct: 181 RDLVPNQVTFGTLIYGLCLNLKLKEAFKLKDYMVNVHGLCPNEYVYATLIKGLCAVGELS 240

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
            AL +KEEM RD +++D+ IYS+LIS LFK GRK+E   +L EM+ +GCK ++VTYN +I
Sbjct: 241 FALRLKEEMERDGVKVDSAIYSTLISGLFKVGRKDEVFGVLMEMELKGCKADTVTYNVMI 300

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           +GFCK++DFE A+ ILDEM +  CK + ISYNVILG LCKDGK
Sbjct: 301 NGFCKDKDFETAYKILDEMMENRCKPDVISYNVILGELCKDGK 343

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297847728|ref|XP_002891745.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297337587|gb|EFH68004.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 193/338 (57%), Positives = 252/338 (74%), Gaps = 4/338 (1%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           K  SS RLA L R + DP  A++LF+NP+P       +P +PFRY+LL YD+IITKLG +
Sbjct: 5   KSVSSFRLASLLRRENDPSAAIKLFRNPDPE----STNPKRPFRYSLLCYDIIITKLGGS 60

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMFDE+ Q+L QLK DTRIVP EI+FCNVI F+GR RL  RAL MFDEM  +  Q TVK 
Sbjct: 61  KMFDELDQVLLQLKTDTRIVPTEILFCNVINFFGRGRLPSRALHMFDEMPQYRCQRTVKS 120

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
            N+LLN  L CG+ ++MKE    ++++  PDAC+YNILIHGC      +DA K+FDEMVK
Sbjct: 121 LNSLLNTLLKCGEFEKMKERLSSIDEFGKPDACTYNILIHGCSQRGCFDDALKLFDEMVK 180

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           ++++PT VTFGTLI+GLC  LRV EALK+K+D+++VY V+P   ++ASL+K LC +GELS
Sbjct: 181 KKVKPTGVTFGTLIHGLCKNLRVKEALKMKQDMLKVYGVRPTVHIYASLVKALCQIGELS 240

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
            A  +K+E    KI++D+ IYS+LIS+L KAGR NE   IL+EM E+GCKP++VTYN LI
Sbjct: 241 FAFKLKDEAYEGKIKVDSAIYSTLISSLIKAGRSNEVSRILEEMSEKGCKPDTVTYNVLI 300

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGL 338
           +GFC E D E+A+ +LDEM +KG K + ISYN+ILG L
Sbjct: 301 NGFCVENDSESAYRVLDEMVEKGLKPDVISYNMILGVL 338

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219274|ref|NP_175740.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75192173|sp|Q9MAG8.1|PPR79_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At1g53330 gi|7769859|gb|AAF69537.1|AC008007_12 F12M16.23 [Arabidopsis thaliana] gi|332194805|gb|AEE32926.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 193/336 (57%), Positives = 250/336 (74%), Gaps = 4/336 (1%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           K  SS RLA L R + DP  A++LF+NP+P       +P +PFRY+LL YD+IITKLG +
Sbjct: 5   KSVSSFRLASLLRRENDPSAAMKLFRNPDPE----STNPKRPFRYSLLCYDIIITKLGGS 60

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMFDE+ Q+L  LK DTRIVP EIIFCNVI F+GR +L  RAL MFDEM  +  Q TVK 
Sbjct: 61  KMFDELDQVLLHLKTDTRIVPTEIIFCNVINFFGRGKLPSRALHMFDEMPQYRCQRTVKS 120

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
            N+LL+  L CG+L++MKE    ++++  PDAC+YNILIHGC  S   +DA K+FDEMVK
Sbjct: 121 LNSLLSALLKCGELEKMKERLSSIDEFGKPDACTYNILIHGCSQSGCFDDALKLFDEMVK 180

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
           ++++PT VTFGTLI+GLC + RV EALK+K D+++VY V+P   ++ASLIK LC +GELS
Sbjct: 181 KKVKPTGVTFGTLIHGLCKDSRVKEALKMKHDMLKVYGVRPTVHIYASLIKALCQIGELS 240

Query: 241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
            A  +K+E    KI++DA IYS+LIS+L KAGR NE   IL+EM E+GCKP++VTYN LI
Sbjct: 241 FAFKLKDEAYEGKIKVDAAIYSTLISSLIKAGRSNEVSMILEEMSEKGCKPDTVTYNVLI 300

Query: 301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG 336
           +GFC E D E+A  +LDEM +KG K + ISYN+ILG
Sbjct: 301 NGFCVENDSESANRVLDEMVEKGLKPDVISYNMILG 336

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449532274|ref|XP_004173107.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g53330-like [Cucumis sativus]

 Score =  315 bits (806), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 147/278 (52%), Positives = 202/278 (72%)

Query: 66  MQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL 125
           M++IL QLK +TR  P E+IFCNVI FYGRA L +RA Q+F+ + SF  + TVK  N+LL
Sbjct: 1   MEEILQQLKQETRFAPHEVIFCNVIAFYGRAHLPDRAFQVFERIPSFRCKRTVKSVNSLL 60

Query: 126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP 185
              L   +L++M ++F  +  Y SPDAC++NILIH   +   L+  W VFDEM KR ++P
Sbjct: 61  AALLKNRQLEKMTQVFVDISNYGSPDACTFNILIHAACLCGDLDAVWGVFDEMQKRGVKP 120

Query: 186 TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV 245
            +VTFGTLIYGL L  ++ EAL+LKED+++VY +KP+  ++ +LIKG C VGEL+ A  +
Sbjct: 121 NVVTFGTLIYGLSLNSKLKEALRLKEDMVKVYMIKPNASIYTTLIKGFCGVGELNFAFKL 180

Query: 246 KEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK 305
           KEEMV   +++ + +YS+LISALFK GRK E   IL+EM E GCKP++VTYNA+I+G CK
Sbjct: 181 KEEMVTSNVKLVSAVYSTLISALFKHGRKEEVSDILREMGENGCKPDTVTYNAIINGHCK 240

Query: 306 EEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
           E D E+A  ++DEM +KGCK +  S+N I+G LCK+GK
Sbjct: 241 ENDLESAHRVMDEMVEKGCKPDVFSFNTIIGWLCKEGK 278

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224161575|ref|XP_002338346.1| predicted protein [Populus trichocarpa] gi|222871947|gb|EEF09078.1| predicted protein [Populus trichocarpa]

 Score =  275 bits (703), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 138/232 (59%), Positives = 169/232 (72%), Gaps = 6/232 (2%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           +P +  RLA L RLQKDPKLALQLFKNPNP        P KPFRY+LL YDLIITKLGRA
Sbjct: 5   RPITPFRLASLLRLQKDPKLALQLFKNPNPK------TPSKPFRYSLLSYDLIITKLGRA 58

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMF+EMQ+IL QLK +T   PKE +FC++I FYGRARL E AL++  E+ SF VQ TVK 
Sbjct: 59  KMFNEMQEILAQLKEETLFTPKEALFCDIINFYGRARLPENALKLLVELPSFRVQRTVKS 118

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
           +N+LL+  L C   D+M+ELF  +EK    DAC+YN+LI G   S RL+DA KVFDEM  
Sbjct: 119 YNSLLSVFLMCKDFDKMRELFVGIEKLGKADACTYNLLIRGFCASGRLDDASKVFDEMTN 178

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKG 232
           R + P ++TFG LIYG CL LR+ EA KLK D+++VY V P+  ++ASLIKG
Sbjct: 179 RGVSPNVITFGNLIYGFCLHLRLKEAFKLKTDMVKVYRVYPNAYIYASLIKG 230

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356514549|ref|XP_003525968.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g53330-like [Glycine max]

 Score =  269 bits (687), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 158/348 (45%), Positives = 217/348 (62%), Gaps = 10/348 (2%)

Query: 1   KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
           KP S  RL  L R  KDP LALQLF NPN           +P R++L  YDL+ITKL RA
Sbjct: 5   KPISPFRLTSLLRSTKDPSLALQLFLNPN----PNPNPNPRPLRHSLRSYDLLITKLARA 60

Query: 61  KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
           KMF +M+QILHQL+  T+    E + C VI  Y RARL  RAL+ F  + SF    T+K 
Sbjct: 61  KMFPQMEQILHQLQTLTQFPVPEPLLCRVIISYARARLPSRALRTFLSIPSFRCTPTLKS 120

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKYVS--PDACSYNILIHGCVVSRR-LEDAWKVFDE 177
           FN+LL+  L C     +  L   +  + +  PDAC+YNILI  C ++   L  A K+FDE
Sbjct: 121 FNSLLHALLLCRDFPSLPRLLPRLRHFSASGPDACTYNILIRACSLNNNDLAHARKLFDE 180

Query: 178 MVKRRLQPTLVTFGTLIYGLCLE--LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA 235
           M+   ++PT VTFGTLI  LC +  L + EA  +KED+ RV+ +KP+  V+ +LIK +C 
Sbjct: 181 MLTLGVRPTQVTFGTLINMLCKDPHLNLREAFSVKEDMERVFKLKPNVFVYTNLIKAVCE 240

Query: 236 VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVT 295
           VG+   A  +K+EMVR+ + +D  +Y++L SA+FKAG+K     IL+EMK  G KP++VT
Sbjct: 241 VGDFDCAFRLKDEMVRNNLRLDVVVYNTLTSAVFKAGKKGLGYRILEEMKSGGVKPDAVT 300

Query: 296 YNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
            N LI  FC+E +   A+ +LD+ G +G K +   YNV++G LCK+GK
Sbjct: 301 CNVLIGEFCREGNLVEAYRVLDD-GVEGVKPDVFGYNVVIGWLCKEGK 347

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	344
TAIR|locus:2009620	471	AT1G53330 [Arabidopsis thalian	0.965	0.704	0.574	3.4e-100
TAIR|locus:2026560	459	AT1G07740 "AT1G07740" [Arabido	0.860	0.644	0.337	2.2e-41
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.941	0.686	0.301	2e-33
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.869	0.471	0.309	3e-33
TAIR|locus:1006230454	506	AT5G18475 "AT5G18475" [Arabido	0.930	0.632	0.282	5.2e-33
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.813	0.468	0.314	6.2e-33
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.860	0.469	0.287	1.3e-32
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.729	0.332	0.357	2.5e-32
TAIR|locus:2095309	687	AT3G09060 "AT3G09060" [Arabido	0.921	0.461	0.284	5.1e-32
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.845	0.389	0.313	1.1e-31

TAIR|locus:2009620 AT1G53330 [Arabidopsis thaliana (taxid:3702)]

 Score = 994 (355.0 bits), Expect = 3.4e-100, P = 3.4e-100
 Identities = 193/336 (57%), Positives = 250/336 (74%)

Query:     1 KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA 60
             K  SS RLA L R + DP  A++LF+NP+P       +P +PFRY+LL YD+IITKLG +
Sbjct:     5 KSVSSFRLASLLRRENDPSAAMKLFRNPDPE----STNPKRPFRYSLLCYDIIITKLGGS 60

Query:    61 KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF 120
             KMFDE+ Q+L  LK DTRIVP EIIFCNVI F+GR +L  RAL MFDEM  +  Q TVK 
Sbjct:    61 KMFDELDQVLLHLKTDTRIVPTEIIFCNVINFFGRGKLPSRALHMFDEMPQYRCQRTVKS 120

Query:   121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK 180
              N+LL+  L CG+L++MKE    ++++  PDAC+YNILIHGC  S   +DA K+FDEMVK
Sbjct:   121 LNSLLSALLKCGELEKMKERLSSIDEFGKPDACTYNILIHGCSQSGCFDDALKLFDEMVK 180

Query:   181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS 240
             ++++PT VTFGTLI+GLC + RV EALK+K D+++VY V+P   ++ASLIK LC +GELS
Sbjct:   181 KKVKPTGVTFGTLIHGLCKDSRVKEALKMKHDMLKVYGVRPTVHIYASLIKALCQIGELS 240

Query:   241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI 300
              A  +K+E    KI++DA IYS+LIS+L KAGR NE   IL+EM E+GCKP++VTYN LI
Sbjct:   241 FAFKLKDEAYEGKIKVDAAIYSTLISSLIKAGRSNEVSMILEEMSEKGCKPDTVTYNVLI 300

Query:   301 SGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG 336
             +GFC E D E+A  +LDEM +KG K + ISYN+ILG
Sbjct:   301 NGFCVENDSESANRVLDEMVEKGLKPDVISYNMILG 336

GO:0005739 "mitochondrion" evidence=ISM

GO:0009790 "embryo development" evidence=IMP

GO:0010154 "fruit development" evidence=IMP

GO:0048364 "root development" evidence=IMP

GO:0048367 "shoot system development" evidence=IMP

TAIR|locus:2026560 AT1G07740 "AT1G07740" [Arabidopsis thaliana (taxid:3702)]

 Score = 439 (159.6 bits), Expect = 2.2e-41, P = 2.2e-41
 Identities = 101/299 (33%), Positives = 172/299 (57%)

Query:    43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERA 102
             FR++   Y  +I KL +++ FD + QIL  +++   +  +E +F  +I  YG+A  +++A
Sbjct:    77 FRHDYPSYSSLIYKLAKSRNFDAVDQILRLVRY-RNVRCRESLFMGLIQHYGKAGSVDKA 135

Query:   103 LQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQ-IMEKYVSPDACSYNILIHG 161
             + +F +++SF+   T++  NTL+N  +  G+L++ K  F    +  + P++ S+NILI G
Sbjct:   136 IDVFHKITSFDCVRTIQSLNTLINVLVDNGELEKAKSFFDGAKDMRLRPNSVSFNILIKG 195

Query:   162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKP 221
              +     E A KVFDEM++  +QP++VT+ +LI  LC    + +A  L ED+++   ++P
Sbjct:   196 FLDKCDWEAACKVFDEMLEMEVQPSVVTYNSLIGFLCRNDDMGKAKSLLEDMIKK-RIRP 254

Query:   222 DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL 281
             +   F  L+KGLC  GE + A  +  +M     +     Y  L+S L K GR +E   +L
Sbjct:   255 NAVTFGLLMKGLCCKGEYNEAKKLMFDMEYRGCKPGLVNYGILMSDLGKRGRIDEAKLLL 314

Query:   282 KEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK 340
              EMK+R  KP+ V YN L++  C E     A+ +L EM  KGCK N  +Y +++ G C+
Sbjct:   315 GEMKKRRIKPDVVIYNILVNHLCTECRVPEAYRVLTEMQMKGCKPNAATYRMMIDGFCR 373

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 364 (133.2 bits), Expect = 2.0e-33, P = 2.0e-33
 Identities = 101/335 (30%), Positives = 163/335 (48%)

Query:    11 LPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQIL 70
             L R +KD + ++ +F +      +   H    F Y +L       +L  A  F   + ++
Sbjct:    22 LMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVL-------RLVSANKFKAAEDLI 74

Query:    71 HQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT 130
              ++K +  +V ++I+     G YGR      +L++F +M  F+   + K + T+L   + 
Sbjct:    75 VRMKIENCVVSEDILLSICRG-YGRVHRPFDSLRVFHKMKDFDCDPSQKAYVTVLAILVE 133

Query:   131 CGKLDRMKELFQIMEKY-VSPDACSYNILIHG-CVVSRRLEDAWKVFDEMVKRRLQPTLV 188
               +L+   + ++ M +  + P   S N+LI   C     ++   K+F EM KR   P   
Sbjct:   134 ENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMPKRGCDPDSY 193

Query:   189 TFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEE 248
             T+GTLI GLC   R+DEA KL  +++   +  P    + SLI GLC    +  A+   EE
Sbjct:   194 TYGTLISGLCRFGRIDEAKKLFTEMVEK-DCAPTVVTYTSLINGLCGSKNVDEAMRYLEE 252

Query:   249 MVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEED 308
             M    IE +   YSSL+  L K GR  +   + + M  RGC+PN VTY  LI+G CKE+ 
Sbjct:   253 MKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTTLITGLCKEQK 312

Query:   309 FEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
              + A  +LD M  +G K +   Y  ++ G C   K
Sbjct:   313 IQEAVELLDRMNLQGLKPDAGLYGKVISGFCAISK 347

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 368 (134.6 bits), Expect = 3.0e-33, P = 3.0e-33
 Identities = 94/304 (30%), Positives = 164/304 (53%)

Query:    41 KPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVI-GFYGRARLL 99
             K  R N++ Y  +I+ L     + +  Q+L  +  + +I P  + F  +I  F    + +
Sbjct:   289 KGIRPNVVTYSSLISCLCSYGRWSDASQLLSDMI-EKKINPNLVTFNALIDAFVKEGKFV 347

Query:   100 ERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIM-EKYVSPDACSYNIL 158
             E A +++D+M   ++   +  +N+L+N      +LD+ K++F+ M  K   PD  +YN L
Sbjct:   348 E-AEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTL 406

Query:   159 IHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN 218
             I G   S+R+ED  ++F EM  R L    VT+ TLI GL  +   D A K+ + ++    
Sbjct:   407 IKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSD-G 465

Query:   219 VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFP 278
             V PD   ++ L+ GLC  G+L  AL V + M + +I++D  IY+++I  + KAG+ ++  
Sbjct:   466 VPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGW 525

Query:   279 AILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGL 338
              +   +  +G KPN VTYN +ISG C +   + A+ +L +M + G   N  +YN ++   
Sbjct:   526 DLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAH 585

Query:   339 CKDG 342
              +DG
Sbjct:   586 LRDG 589

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1006230454 AT5G18475 "AT5G18475" [Arabidopsis thaliana (taxid:3702)]

 Score = 360 (131.8 bits), Expect = 5.2e-33, P = 5.2e-33
 Identities = 96/340 (28%), Positives = 179/340 (52%)

Query:    11 LPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQIL 70
             L + ++DP+  L +F          +A   K F +N   Y +++  L R K F  +  IL
Sbjct:    62 LMKRERDPQGVLDIFN---------KASQQKGFNHNNATYSVLLDNLVRHKKFLAVDAIL 112

Query:    71 HQLKHDT-RIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF-NVQMTVKFFNTLLNPK 128
             HQ+K++T R   +E +F N++  + R+ L ++ ++MF+ +     V+ ++   +T LN  
Sbjct:   113 HQMKYETCRF--QESLFLNLMRHFSRSDLHDKVMEMFNLIQVIARVKPSLNAISTCLNLL 170

Query:   129 LTCGKLDRMKELFQIMEKY---VSPDACSYNILI-HGCVVSRRLEDAWKVFDEMVKRRLQ 184
             +  G+++  ++L  +  K+   + P+ C +NIL+ H C  +  +  A+ V +EM +  + 
Sbjct:   171 IDSGEVNLSRKLL-LYAKHNLGLQPNTCIFNILVKHHCK-NGDINFAFLVVEEMKRSGIS 228

Query:   185 -PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL 243
              P  +T+ TL+  L    R  EA++L ED++    + PD   F  +I G C  GE+  A 
Sbjct:   229 YPNSITYSTLMDCLFAHSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVERAK 288

Query:   244 GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF 303
              + + M ++    +   YS+L++   K G+  E      E+K+ G K ++V Y  L++ F
Sbjct:   289 KILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCF 348

Query:   304 CKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
             C+  + + A  +L EM    C+A+ ++YNVIL GL  +G+
Sbjct:   349 CRNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGR 388

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 364 (133.2 bits), Expect = 6.2e-33, P = 6.2e-33
 Identities = 91/289 (31%), Positives = 150/289 (51%)

Query:    56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQ 115
             +LG+ +   ++ +IL      +  VP  I +  +I  Y +A  +  AL + D MS   V 
Sbjct:   149 RLGKTRKAAKILEILE----GSGAVPDVITYNVMISGYCKAGEINNALSVLDRMS---VS 201

Query:   116 MTVKFFNTLLNPKLTCGKLDR-MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV 174
               V  +NT+L      GKL + M+ L +++++   PD  +Y ILI        +  A K+
Sbjct:   202 PDVVTYNTILRSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEATCRDSGVGHAMKL 261

Query:   175 FDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC 234
              DEM  R   P +VT+  L+ G+C E R+DEA+K   D M     +P+      +++ +C
Sbjct:   262 LDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLND-MPSSGCQPNVITHNIILRSMC 320

Query:   235 AVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSV 294
             + G    A  +  +M+R         ++ LI+ L + G       IL++M + GC+PNS+
Sbjct:   321 STGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSL 380

Query:   295 TYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
             +YN L+ GFCKE+  + A   L+ M  +GC  + ++YN +L  LCKDGK
Sbjct:   381 SYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGK 429

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 1.3e-32, P = 1.3e-32
 Identities = 86/299 (28%), Positives = 160/299 (53%)

Query:    46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQM 105
             +L+ Y +++  L +    D    +L++++   ++ P  +I+  +I    + + ++ AL +
Sbjct:   220 DLVTYGVVVNGLCKRGDTDLAFNLLNKMEQG-KLEPGVLIYNTIIDGLCKYKHMDDALNL 278

Query:   106 FDEMSSFNVQMTVKFFNTLLNPKLTCGKL-DRMKELFQIMEKYVSPDACSYNILIHGCVV 164
             F EM +  ++  V  +++L++     G+  D  + L  ++E+ ++PD  +++ LI   V 
Sbjct:   279 FKEMETKGIRPNVVTYSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVK 338

Query:   165 SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ 224
               +L +A K++DEMVKR + P++VT+ +LI G C+  R+DEA ++ E  M   +  PD  
Sbjct:   339 EGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFE-FMVSKHCFPDVV 397

Query:   225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM 284
              + +LIKG C    +   + V  EM +  +  +   Y+ LI  LF+AG  +    I KEM
Sbjct:   398 TYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEM 457

Query:   285 KERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
                G  PN +TYN L+ G CK    E A  + + +     +    +YN+++ G+CK GK
Sbjct:   458 VSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGK 516

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 2.5e-32, P = 2.5e-32
 Identities = 92/257 (35%), Positives = 135/257 (52%)

Query:    88 NVI--GFYGRARLLERALQMFDEMSSFNVQMTVKF-FNTLLNPKLTCGKLDRMKELFQIM 144
             NVI  GF    R+ E AL    EMS+ +     ++ FNTL+N     G +    E+  +M
Sbjct:   263 NVIVHGFCKEGRV-EDALNFIQEMSNQDGFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVM 321

Query:   145 -EKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRV 203
              ++   PD  +YN +I G      +++A +V D+M+ R   P  VT+ TLI  LC E +V
Sbjct:   322 LQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQV 381

Query:   204 DEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSS 263
             +EA +L   ++    + PD   F SLI+GLC      +A+ + EEM     E D   Y+ 
Sbjct:   382 EEATELAR-VLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNM 440

Query:   264 LISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG 323
             LI +L   G+ +E   +LK+M+  GC  + +TYN LI GFCK      A  I DEM   G
Sbjct:   441 LIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHG 500

Query:   324 CKANPISYNVILGGLCK 340
                N ++YN ++ GLCK
Sbjct:   501 VSRNSVTYNTLIDGLCK 517

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2095309 AT3G09060 "AT3G09060" [Arabidopsis thaliana (taxid:3702)]

 Score = 358 (131.1 bits), Expect = 5.1e-32, P = 5.1e-32
 Identities = 94/330 (28%), Positives = 173/330 (52%)

Query:    15 QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLK 74
             +KD K A++L+        D+  +P      N+  ++++I+ L +    D+  +I  ++K
Sbjct:   232 EKDHKTAMELWDRLL---EDSSVYP------NVKTHNIMISGLSKCGRVDDCLKIWERMK 282

Query:    75 HDTRIVPKEII-FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK 133
              + R   K++  + ++I     A  +++A  +F+E+      + V  +NT+L     CGK
Sbjct:   283 QNER--EKDLYTYSSLIHGLCDAGNVDKAESVFNELDERKASIDVVTYNTMLGGFCRCGK 340

Query:   134 LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTL 193
             +    EL++IME   S +  SYNILI G + + ++++A  ++  M  +       T+G  
Sbjct:   341 IKESLELWRIMEHKNSVNIVSYNILIKGLLENGKIDEATMIWRLMPAKGYAADKTTYGIF 400

Query:   194 IYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK 253
             I+GLC+   V++AL + +++        D   +AS+I  LC    L  A  + +EM +  
Sbjct:   401 IHGLCVNGYVNKALGVMQEV-ESSGGHLDVYAYASIIDCLCKKKRLEEASNLVKEMSKHG 459

Query:   254 IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAF 313
             +E+++ + ++LI  L +  R  E    L+EM + GC+P  V+YN LI G CK   F  A 
Sbjct:   460 VELNSHVCNALIGGLIRDSRLGEASFFLREMGKNGCRPTVVSYNILICGLCKAGKFGEAS 519

Query:   314 TILDEMGDKGCKANPISYNVILGGLCKDGK 343
               + EM + G K +  +Y+++L GLC+D K
Sbjct:   520 AFVKEMLENGWKPDLKTYSILLCGLCRDRK 549

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 356 (130.4 bits), Expect = 1.1e-31, P = 1.1e-31
 Identities = 93/297 (31%), Positives = 146/297 (49%)

Query:    50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRA-RLLERALQMFDE 108
             +DL++    R  + D+   I+H L      +P  + +  V+    R+ R +  A  +F E
Sbjct:   137 FDLVVKSYSRLSLIDKALSIVH-LAQAHGFMPGVLSYNAVLDATIRSKRNISFAENVFKE 195

Query:   109 MSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIME-KYVSPDACSYNILIHGCVVSRR 167
             M    V   V  +N L+      G +D    LF  ME K   P+  +YN LI G    R+
Sbjct:   196 MLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRK 255

Query:   168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE-ALKLKEDIMRVYNVKPDGQVF 226
             ++D +K+   M  + L+P L+++  +I GLC E R+ E +  L E   R Y++  D   +
Sbjct:   256 IDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSL--DEVTY 313

Query:   227 ASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKE 286
              +LIKG C  G    AL +  EM+R  +      Y+SLI ++ KAG  N     L +M+ 
Sbjct:   314 NTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRV 373

Query:   287 RGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK 343
             RG  PN  TY  L+ GF ++     A+ +L EM D G   + ++YN ++ G C  GK
Sbjct:   374 RGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGK 430

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9MAG8	PPR79_ARATH	No assigned EC number	0.5744	0.9651	0.7048	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00027837001 SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (476 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	344
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-21
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-20
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-14
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	8e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.004
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.004

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

 Score = 93.4 bits (232), Expect = 7e-21
 Identities = 65/274 (23%), Positives = 116/274 (42%), Gaps = 47/274 (17%)

Query: 104 QMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQ---IM-EKYVSPDACSYNILI 159
           ++F EM +  V+  V  F  L++    C +  ++ + F    IM  K V PD   +N LI
Sbjct: 493 EVFHEMVNAGVEANVHTFGALID---GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALI 549

Query: 160 HGCVVSRRLEDAWKVFDEMVKRRLQPTL---VTFGTLIYGLCLELRVDEALKLKEDIMRV 216
             C  S  ++ A+ V  EM K    P     +T G L+       +VD A ++ + ++  
Sbjct: 550 SACGQSGAVDRAFDVLAEM-KAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ-MIHE 607

Query: 217 YNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNE 276
           YN+K   +V+   +      G+   AL + ++M +  ++ D   +S+L+     AG  ++
Sbjct: 608 YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 277 FPAILKEMKERG--------------C---------------------KPNSVTYNALIS 301
              IL++ +++G              C                     +P   T NALI+
Sbjct: 668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT 727

Query: 302 GFCKEEDFEAAFTILDEMGDKGCKANPISYNVIL 335
             C+      A  +L EM   G   N I+Y+++L
Sbjct: 728 ALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Length = 1060

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

 Score = 93.0 bits (231), Expect = 1e-20
 Identities = 65/269 (24%), Positives = 125/269 (46%), Gaps = 17/269 (6%)

Query: 81  PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNV-----QMTVKFFNTLLNPKLTCGKLD 135
           P  ++F  +I   G++  ++RA  +  EM +         +TV     L+      G++D
Sbjct: 540 PDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV---GALMKACANAGQVD 596

Query: 136 RMKELFQIMEKY-VSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI 194
           R KE++Q++ +Y +      Y I ++ C      + A  ++D+M K+ ++P  V F  L+
Sbjct: 597 RAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALV 656

Query: 195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI 254
                   +D+A ++ +D  R   +K     ++SL+           AL + E++   K+
Sbjct: 657 DVAGHAGDLDKAFEILQD-ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL 715

Query: 255 EMDAGIYSSLISALFKAGRKNEFP---AILKEMKERGCKPNSVTYNALISGFCKEEDFEA 311
                  ++LI+AL +    N+ P    +L EMK  G  PN++TY+ L+    +++D + 
Sbjct: 716 RPTVSTMNALITALCEG---NQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV 772

Query: 312 AFTILDEMGDKGCKANPISYNVILGGLCK 340
              +L +  + G K N +    I  GLC 
Sbjct: 773 GLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800

Length = 1060

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

 Score = 74.0 bits (183), Expect = 3e-17
 Identities = 22/50 (44%), Positives = 33/50 (66%)

Query: 291 PNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK 340
           P+ VTYN LI G+CK+   E A  + +EM  +G K N  +Y++++ GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 80.3 bits (198), Expect = 2e-16
 Identities = 71/272 (26%), Positives = 110/272 (40%), Gaps = 54/272 (19%)

Query: 109 MSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIM----EKYVSPDACSYNILIHGCVV 164
           +S+FN+ M+V            C     +    +++    E  +  D   Y  LI  C  
Sbjct: 437 LSTFNMLMSV------------CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK 484

Query: 165 SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ 224
           S +++  ++VF EMV   ++  + TFG LI G     +V +A      IMR  NVKPD  
Sbjct: 485 SGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG-AYGIMRSKNVKPDRV 543

Query: 225 VFASLIKGLCAVGELSLALGVKEEMVRDK--IEMDAGIYSSLISALFKAG---RKNE--- 276
           VF +LI      G +  A  V  EM  +   I+ D     +L+ A   AG   R  E   
Sbjct: 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ 603

Query: 277 ---------FPA--------------------ILKEMKERGCKPNSVTYNALISGFCKEE 307
                     P                     I  +MK++G KP+ V ++AL+       
Sbjct: 604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAG 663

Query: 308 DFEAAFTILDEMGDKGCKANPISYNVILGGLC 339
           D + AF IL +   +G K   +SY+ ++G   
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACS 695

Length = 1060

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

 Score = 69.4 bits (171), Expect = 2e-15
 Identities = 22/49 (44%), Positives = 32/49 (65%)

Query: 150 PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLC 198
           PD  +YN LI G     ++E+A K+F+EM KR ++P + T+  LI GLC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 64.7 bits (159), Expect = 7e-14
 Identities = 21/45 (46%), Positives = 27/45 (60%)

Query: 261 YSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK 305
           Y++LI    K G+  E   +  EMK+RG KPN  TY+ LI G CK
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 55.4 bits (135), Expect = 1e-10
 Identities = 16/33 (48%), Positives = 21/33 (63%)

Query: 287 RGCKPNSVTYNALISGFCKEEDFEAAFTILDEM 319
           +G KP+ VTYN LI G C+    + A  +LDEM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 58.7 bits (142), Expect = 2e-09
 Identities = 50/226 (22%), Positives = 96/226 (42%), Gaps = 10/226 (4%)

Query: 119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEM 178
           KFF         C K   +KE F+  +   +P   ++N+L+  C  S+ ++ A +V   +
Sbjct: 411 KFFKA-------CKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLV 463

Query: 179 VKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE 238
            +  L+     + TLI       +VD   ++  + M    V+ +   F +LI G    G+
Sbjct: 464 QEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHE-MVNAGVEANVHTFGALIDGCARAGQ 522

Query: 239 LSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG--CKPNSVTY 296
           ++ A G    M    ++ D  ++++LISA  ++G  +    +L EMK       P+ +T 
Sbjct: 523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV 582

Query: 297 NALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDG 342
            AL+         + A  +   + +   K  P  Y + +    + G
Sbjct: 583 GALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG 628

Length = 1060

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

 Score = 49.3 bits (119), Expect = 2e-08
 Identities = 22/50 (44%), Positives = 33/50 (66%), Gaps = 1/50 (2%)

Query: 185 PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC 234
           P +VT+ TLI G C + +V+EALKL  + M+   +KP+   ++ LI GLC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNE-MKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 55.6 bits (134), Expect = 2e-08
 Identities = 38/146 (26%), Positives = 71/146 (48%), Gaps = 7/146 (4%)

Query: 122 NTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR 181
           N LL+  + CG+++     F   EK    D  S+NIL+ G V   +   A ++F+ MV+ 
Sbjct: 528 NALLDLYVRCGRMNYAWNQFNSHEK----DVVSWNILLTGYVAHGKGSMAVELFNRMVES 583

Query: 182 RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL 241
            + P  VTF +L+        V + L+    +   Y++ P+ + +A ++  L   G+L+ 
Sbjct: 584 GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTE 643

Query: 242 ALGVKEEMVRDKIEMDAGIYSSLISA 267
           A     +M    I  D  ++ +L++A
Sbjct: 644 AYNFINKM---PITPDPAVWGALLNA 666

Length = 857

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

 Score = 44.4 bits (106), Expect = 9e-07
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 294 VTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN 327
           VTYN LI G CK    E A  +  EM ++G + +
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.0 bits (105), Expect = 1e-06
 Identities = 13/34 (38%), Positives = 22/34 (64%)

Query: 153 CSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT 186
            +YN LI G   + R+E+A ++F EM +R ++P 
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 = 44.0 bits (105), Expect = 1e-06
 Identities = 16/31 (51%), Positives = 20/31 (64%)

Query: 294 VTYNALISGFCKEEDFEAAFTILDEMGDKGC 324
           VTYN+LISG+CK    E A  +  EM +KG 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 42.0 bits (100), Expect = 8e-06
 Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 121 FNTLLNPKLTCGKLDRMKELFQIMEKY-VSPDACSYNILIHGC 162
           +NTL++     GK++   +LF  M+K  + P+  +Y+ILI G 
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 40.8 bits (97), Expect = 2e-05
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 148 VSPDACSYNILIHGCVVSRRLEDAWKVFDEMV 179
           + PD  +YN LI G   + R+++A ++ DEM 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 45.2 bits (107), Expect = 3e-05
 Identities = 66/262 (25%), Positives = 112/262 (42%), Gaps = 29/262 (11%)

Query: 56  KLGRA--KMFDEMQQILHQLKHDTRIVPKEIIFCNV-IGFYGRARLLERALQMFDEMSSF 112
           +LG A   MF    +++H      ++  +++   NV +G Y +A   + AL ++  M   
Sbjct: 122 RLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA 181

Query: 113 NVQMTVKFFNTLLNPKLTCG---KLDRMKELFQIMEKY-VSPDACSYNILIH-----GCV 163
            V+  V  F  +L    TCG    L R +E+   + ++    D    N LI      G V
Sbjct: 182 GVRPDVYTFPCVLR---TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDV 238

Query: 164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDG 223
           VS R      VFD M +R      +++  +I G        E L+L    MR  +V PD 
Sbjct: 239 VSAR-----LVFDRMPRR----DCISWNAMISGYFENGECLEGLELFF-TMRELSVDPDL 288

Query: 224 QVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKE 283
               S+I     +G+  L   +   +V+    +D  + +SLI      G   E   +   
Sbjct: 289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 284 MKERGCKPNSVTYNALISGFCK 305
           M+ +    ++V++ A+ISG+ K
Sbjct: 349 METK----DAVSWTAMISGYEK 366

Length = 857

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

 Score = 39.7 bits (94), Expect = 4e-05
 Identities = 11/30 (36%), Positives = 20/30 (66%)

Query: 154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRL 183
           +YN LI G   + +LE+A ++F EM ++ +
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 44.8 bits (106), Expect = 5e-05
 Identities = 51/264 (19%), Positives = 112/264 (42%), Gaps = 30/264 (11%)

Query: 89  VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK-- 146
           +I  Y +  L ++AL+ +  M   NV        ++L+     G LD   +L ++ E+  
Sbjct: 360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG 419

Query: 147 ---YVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRV 203
              YV       N LI      + ++ A +VF  + ++     ++++ ++I GL L  R 
Sbjct: 420 LISYV----VVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRC 471

Query: 204 DEALK-LKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYS 262
            EAL   ++ ++    +KP+     + +     +G L     +   ++R  I  D  + +
Sbjct: 472 FEALIFFRQMLL---TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPN 528

Query: 263 SLISALFKAGRK----NEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDE 318
           +L+    + GR     N+F +          + + V++N L++G+        A  + + 
Sbjct: 529 ALLDLYVRCGRMNYAWNQFNS---------HEKDVVSWNILLTGYVAHGKGSMAVELFNR 579

Query: 319 MGDKGCKANPISYNVILGGLCKDG 342
           M + G   + +++  +L    + G
Sbjct: 580 MVESGVNPDEVTFISLLCACSRSG 603

Length = 857

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

 Score = 39.3 bits (93), Expect = 7e-05
 Identities = 17/35 (48%), Positives = 25/35 (71%), Gaps = 1/35 (2%)

Query: 181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMR 215
           + L+P +VT+ TLI GLC   RVDEA++L ++ M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE-ME 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 = 39.0 bits (92), Expect = 7e-05
 Identities = 17/34 (50%), Positives = 22/34 (64%)

Query: 260 IYSSLISALFKAGRKNEFPAILKEMKERGCKPNS 293
            Y++LI  L KAGR  E   + KEMKERG +P+ 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 40/170 (23%), Positives = 74/170 (43%), Gaps = 6/170 (3%)

Query: 167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR-VDEALKLKEDIMRVYNVKPDGQV 225
           R++D   + ++M KR L      +    +  C + R V EA +  + ++R     P    
Sbjct: 385 RIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAK-LIRN----PTLST 439

Query: 226 FASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMK 285
           F  L+    +  ++  AL V   +    ++ D  +Y++LIS   K+G+ +    +  EM 
Sbjct: 440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV 499

Query: 286 ERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVIL 335
             G + N  T+ ALI G  +      AF     M  K  K + + +N ++
Sbjct: 500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALI 549

Length = 1060

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

 Score = 37.9 bits (89), Expect = 2e-04
 Identities = 9/32 (28%), Positives = 15/32 (46%)

Query: 154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP 185
           +YN L+     +   + A  V +EM    L+P
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 36.8 bits (86), Expect = 4e-04
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 261 YSSLISALFKAGRKNEFPAILKEMKERGCKP 291
           Y++L+ AL KAG  +   A+L+EMK  G KP
Sbjct: 4   YNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 36.0 bits (84), Expect = 8e-04
 Identities = 13/33 (39%), Positives = 17/33 (51%)

Query: 294 VTYNALISGFCKEEDFEAAFTILDEMGDKGCKA 326
            TYNAL+    K  D + A  +L+EM   G K 
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 38/178 (21%), Positives = 73/178 (41%), Gaps = 27/178 (15%)

Query: 168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFA 227
           L DA ++FDEM +R     L ++GT+I GL       EA  L  ++    +   + + F 
Sbjct: 174 LIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGS-DAEPRTFV 228

Query: 228 SLIKGLCAVGEL---------SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFP 278
            +++    +G            L  GV           D  +  +LI    K G   +  
Sbjct: 229 VMLRASAGLGSARAGQQLHCCVLKTGVVG---------DTFVSCALIDMYSKCGDIEDAR 279

Query: 279 AILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG 336
            +   M E+     +V +N++++G+      E A  +  EM D G   +  ++++++ 
Sbjct: 280 CVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIR 333

Length = 697

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

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 32/153 (20%), Positives = 62/153 (40%), Gaps = 4/153 (2%)

Query: 183 LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA 242
           ++ + V+  + I  L    R  EAL+L E +            + +L++   A+  +   
Sbjct: 83  IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCV 142

Query: 243 LGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISG 302
             V   +     E D  + + ++    K G   +   +  EM ER    N  ++  +I G
Sbjct: 143 KAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGG 198

Query: 303 FCKEEDFEAAFTILDEMGDKGCKANPISYNVIL 335
                ++  AF +  EM + G  A P ++ V+L
Sbjct: 199 LVDAGNYREAFALFREMWEDGSDAEPRTFVVML 231

Length = 697

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	344
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
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.95
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.84
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.83
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.79
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.79
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.77
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.76
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.76
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.74
PRK14574	822	hmsH outer membrane protein; Provisional	99.73
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.73
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.72
KOG1126	638	consensus DNA-binding cell division cycle control	99.71
KOG1126	638	consensus DNA-binding cell division cycle control	99.69
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.66
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.65
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.65
KOG2076	895	consensus RNA polymerase III transcription factor	99.63
PRK12370	553	invasion protein regulator; Provisional	99.63
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.62
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
PRK12370	553	invasion protein regulator; Provisional	99.61
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.6
KOG2076	895	consensus RNA polymerase III transcription factor	99.6
KOG1129	478	consensus TPR repeat-containing protein [General f	99.57
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.56
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.54
KOG2003	840	consensus TPR repeat-containing protein [General f	99.54
PF13041	50	PPR_2: PPR repeat family	99.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.52
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.51
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.5
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.5
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.49
KOG2003	840	consensus TPR repeat-containing protein [General f	99.49
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.49
KOG1129	478	consensus TPR repeat-containing protein [General f	99.48
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.47
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.45
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.44
PF13041	50	PPR_2: PPR repeat family	99.44
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.44
PRK11189	296	lipoprotein NlpI; Provisional	99.43
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.39
PRK11189	296	lipoprotein NlpI; Provisional	99.38
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.37
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.34
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.32
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.32
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.3
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.29
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.21
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.2
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.2
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.16
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.16
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.15
KOG1125	579	consensus TPR repeat-containing protein [General f	99.11
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.1
PLN02789	320	farnesyltranstransferase	99.07
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.06
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.06
PLN02789	320	farnesyltranstransferase	99.06
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.03
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.03
KOG1125	579	consensus TPR repeat-containing protein [General f	99.03
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.02
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.0
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.99
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.99
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.98
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.97
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.96
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.96
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.93
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.92
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.92
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.91
PF12854	34	PPR_1: PPR repeat	98.91
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.88
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.86
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.86
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.85
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.85
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.84
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.84
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.83
PRK04841	903	transcriptional regulator MalT; Provisional	98.81
PRK15359	144	type III secretion system chaperone protein SscB;	98.8
PF12854	34	PPR_1: PPR repeat	98.79
PRK15359	144	type III secretion system chaperone protein SscB;	98.79
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.76
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.75
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.72
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.71
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.71
PRK04841	903	transcriptional regulator MalT; Provisional	98.69
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.67
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.66
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.66
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.64
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.63
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.62
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.6
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.57
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.56
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.54
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.54
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.5
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.48
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.47
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.44
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.42
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.39
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.38
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.38
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.34
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.34
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.32
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.3
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.28
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.28
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.26
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.21
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.2
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.18
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.16
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.16
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.15
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.15
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.15
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.14
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.14
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.14
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.14
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.13
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.12
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.12
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.09
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.09
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.05
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.04
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.0
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.99
KOG0553	304	consensus TPR repeat-containing protein [General f	97.98
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.97
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.96
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.95
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.91
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.91
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.91
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.9
PF12688	120	TPR_5: Tetratrico peptide repeat	97.89
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.84
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.83
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.78
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.77
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.75
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.73
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.73
KOG0553	304	consensus TPR repeat-containing protein [General f	97.72
PF12688	120	TPR_5: Tetratrico peptide repeat	97.71
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.71
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.7
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.68
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.68
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.62
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.56
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.53
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.52
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.52
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.52
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.44
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.41
PRK10803	263	tol-pal system protein YbgF; Provisional	97.4
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.37
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.36
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.36
PF13371	73	TPR_9: Tetratricopeptide repeat	97.35
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.34
PRK15331	165	chaperone protein SicA; Provisional	97.34
PRK10803	263	tol-pal system protein YbgF; Provisional	97.34
PF13371	73	TPR_9: Tetratricopeptide repeat	97.28
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.24
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	97.24
PRK15331	165	chaperone protein SicA; Provisional	97.24
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.19
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.18
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.12
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.08
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.06
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.02
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.96
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.95
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.92
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.87
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.86
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.85
PRK11906	458	transcriptional regulator; Provisional	96.8
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.8
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.78
KOG3941	406	consensus Intermediate in Toll signal transduction	96.73
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.72
PF13512	142	TPR_18: Tetratricopeptide repeat	96.67
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.67
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.64
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.59
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.5
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.48
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.4
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.36
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.36
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.32
PF13512	142	TPR_18: Tetratricopeptide repeat	96.32
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.32
PRK11906	458	transcriptional regulator; Provisional	96.28
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.26
PF13428	44	TPR_14: Tetratricopeptide repeat	96.22
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.22
KOG3941	406	consensus Intermediate in Toll signal transduction	96.18
KOG4555	175	consensus TPR repeat-containing protein [Function	96.14
COG1747	711	Uncharacterized N-terminal domain of the transcrip	96.14
KOG4555	175	consensus TPR repeat-containing protein [Function	96.1
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.03
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.95
PF13428	44	TPR_14: Tetratricopeptide repeat	95.84
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.8
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.76
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.76
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.76
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.76
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.75
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.51
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.49
KOG1585	308	consensus Protein required for fusion of vesicles	95.42
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.4
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.24
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.18
KOG1585	308	consensus Protein required for fusion of vesicles	95.16
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.03
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.01
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.0
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.94
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.89
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.83
KOG1258	577	consensus mRNA processing protein [RNA processing	94.57
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.46
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.45
PF13929	292	mRNA_stabil: mRNA stabilisation	94.34
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.26
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.2
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.18
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.18
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.09
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.05
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.03
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.99
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.89
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	93.84
PF13431	34	TPR_17: Tetratricopeptide repeat	93.75
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.64
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.42
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.32
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.25
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.11
PF13431	34	TPR_17: Tetratricopeptide repeat	93.09
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.05
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.99
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.92
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.74
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.51
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.25
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.19
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.9
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.87
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.75
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.72
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.55
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.01
KOG4234	271	consensus TPR repeat-containing protein [General f	90.96
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.94
PRK09687	280	putative lyase; Provisional	90.72
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.62
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.52
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.34
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.05
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.88
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	89.76
KOG4234	271	consensus TPR repeat-containing protein [General f	89.59
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.53
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	89.53
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.51
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	89.47
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	88.98
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.87
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.85
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	88.43
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.22
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.15
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.44
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.31
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.3
PF13762	145	MNE1: Mitochondrial splicing apparatus component	86.45
PF13929	292	mRNA_stabil: mRNA stabilisation	86.28
KOG3807	556	consensus Predicted membrane protein ST7 (tumor su	86.15
COG3947	361	Response regulator containing CheY-like receiver a	86.1
PF09477	116	Type_III_YscG: Bacterial type II secretion system	85.91
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	85.88
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	85.59
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.21
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	85.11
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	85.02
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	84.6
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	84.55
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.54
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	84.46
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	84.05
KOG0687	393	consensus 26S proteasome regulatory complex, subun	83.5
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.27
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.23
PRK10941	269	hypothetical protein; Provisional	82.19
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	81.58
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.55
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	81.37
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	80.98
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	80.83
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	80.73
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	80.67
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	80.66
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.47
PRK09687	280	putative lyase; Provisional	80.2

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.4e-56  Score=404.89  Aligned_cols=330  Identities=21%  Similarity=0.311  Sum_probs=309.3

Q ss_pred             CchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc
Q 038490            3 TSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus         3 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   82 (344)
                      .++..++..+++.|+++.|.++|+.|...          +..||..+|+.+|.+|++.|++++|.++|++|.+. |+.||
T Consensus       438 ~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~----------Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~-Gv~Pd  506 (1060)
T PLN03218        438 STFNMLMSVCASSQDIDGALRVLRLVQEA----------GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEAN  506 (1060)
T ss_pred             HHHHHHHHHHHhCcCHHHHHHHHHHHHHc----------CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCC
Confidence            46778899999999999999999998543          36789999999999999999999999999999987 78999


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc--C-CCCcccHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY--V-SPDACSYNILI  159 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~-~~~~~~~~~l~  159 (344)
                      ..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|...  + .|+..+|++++
T Consensus       507 vvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI  586 (1060)
T PLN03218        507 VHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALM  586 (1060)
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999753  3 38999999999


Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      .+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|..+|++|.+ .|+.||..+|+.++.+|++.|++
T Consensus       587 ~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~-~Gv~PD~~TynsLI~a~~k~G~~  665 (1060)
T PLN03218        587 KACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK-KGVKPDEVFFSALVDVAGHAGDL  665 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhCCCH
Confidence            99999999999999999999999999999999999999999999999999999665 58999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      ++|.+++++|.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|
T Consensus       666 eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM  745 (1060)
T PLN03218        666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEM  745 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCChhhHHHHHHHHhhcCCC
Q 038490          320 GDKGCKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       320 ~~~~~~p~~~~~~~ll~~~~~~g~~  344 (344)
                      .+.|+.||..||+.++.+|++.|++
T Consensus       746 ~~~Gi~Pd~~Ty~sLL~a~~k~G~l  770 (1060)
T PLN03218        746 KRLGLCPNTITYSILLVASERKDDA  770 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHCCCH
Confidence            9999999999999999999998863

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.2e-54  Score=393.98  Aligned_cols=325  Identities=20%  Similarity=0.311  Sum_probs=312.4

Q ss_pred             CchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc
Q 038490            3 TSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus         3 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   82 (344)
                      .++..++..|++.|++++|.++|++|...          +..||..+|+.+|.+|++.|++++|.++|+.|.+. |+.||
T Consensus       473 ~tynsLI~~y~k~G~vd~A~~vf~eM~~~----------Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~-Gv~PD  541 (1060)
T PLN03218        473 KLYTTLISTCAKSGKVDAMFEVFHEMVNA----------GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK-NVKPD  541 (1060)
T ss_pred             HHHHHHHHHHHhCcCHHHHHHHHHHHHHc----------CCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCC
Confidence            57889999999999999999999999543          36789999999999999999999999999999987 79999


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHh--cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSS--FNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILI  159 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~  159 (344)
                      ..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.+. |+..+|+.++
T Consensus       542 ~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI  621 (1060)
T PLN03218        542 RVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAV  621 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHH
Confidence            99999999999999999999999999986  67899999999999999999999999999999999886 8999999999


Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+ .|+.|+..+|+.++.+|++.|++
T Consensus       622 ~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k-~G~~pd~~tynsLI~ay~k~G~~  700 (1060)
T PLN03218        622 NSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK-QGIKLGTVSYSSLMGACSNAKNW  700 (1060)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhCCCH
Confidence            99999999999999999999999999999999999999999999999999999765 59999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      ++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.+++++|
T Consensus       701 eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M  780 (1060)
T PLN03218        701 KKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQA  780 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCChhhHHHHHHHHh
Q 038490          320 GDKGCKANPISYNVILGGLC  339 (344)
Q Consensus       320 ~~~~~~p~~~~~~~ll~~~~  339 (344)
                      .+.|+.||..+|++|+..|.
T Consensus       781 ~k~Gi~pd~~tynsLIglc~  800 (1060)
T PLN03218        781 KEDGIKPNLVMCRCITGLCL  800 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHH
Confidence            99999999999999997653

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

Probab=100.00  E-value=2.9e-52  Score=374.84  Aligned_cols=320  Identities=18%  Similarity=0.188  Sum_probs=293.9

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP   81 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (344)
                      +.++..++..|.+.|++++|.++|+++.              .||..+|+.++.+|++.|++++|.++|++|.+. |+.|
T Consensus       158 ~~~~n~Li~~y~k~g~~~~A~~lf~~m~--------------~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~-g~~p  222 (697)
T PLN03081        158 QYMMNRVLLMHVKCGMLIDARRLFDEMP--------------ERNLASWGTIIGGLVDAGNYREAFALFREMWED-GSDA  222 (697)
T ss_pred             hHHHHHHHHHHhcCCCHHHHHHHHhcCC--------------CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHh-CCCC
Confidence            3578889999999999999999999992              248899999999999999999999999999987 7899


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +..+|+.++.+|++.|..+.+.+++..+.+.|+.++..+++.|+.+|++.|++++|.++|+.|..   ++..+|++++.+
T Consensus       223 ~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~---~~~vt~n~li~~  299 (697)
T PLN03081        223 EPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE---KTTVAWNSMLAG  299 (697)
T ss_pred             ChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC---CChhHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999865   788999999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      |++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..+.+. |+.||..+|+.++.+|++.|++++
T Consensus       300 y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~  378 (697)
T PLN03081        300 YALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMED  378 (697)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHH
Confidence            9999999999999999999999999999999999999999999999999997664 889999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          242 ALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      |.++|++|.+    ||..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+
T Consensus       379 A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        379 ARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             HHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            9999998863    688899999999999999999999999999999999999999999999999999999999999975


Q ss_pred             -CCCCCChhhHHHHHHHHhhcCCC
Q 038490          322 -KGCKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       322 -~~~~p~~~~~~~ll~~~~~~g~~  344 (344)
                       .|+.|+..+|++++++|++.|++
T Consensus       455 ~~g~~p~~~~y~~li~~l~r~G~~  478 (697)
T PLN03081        455 NHRIKPRAMHYACMIELLGREGLL  478 (697)
T ss_pred             hcCCCCCccchHhHHHHHHhcCCH
Confidence             68999999999999999998863

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-50  Score=372.60  Aligned_cols=324  Identities=17%  Similarity=0.197  Sum_probs=291.0

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP   81 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (344)
                      +.++..++..|.+.|++++|.++|+++.              .+|..+|+.+|.+|++.|++++|.++|++|... |+.|
T Consensus       222 ~~~~n~Li~~y~k~g~~~~A~~lf~~m~--------------~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~-g~~P  286 (857)
T PLN03077        222 VDVVNALITMYVKCGDVVSARLVFDRMP--------------RRDCISWNAMISGYFENGECLEGLELFFTMREL-SVDP  286 (857)
T ss_pred             cchHhHHHHHHhcCCCHHHHHHHHhcCC--------------CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCC
Confidence            3567889999999999999999999992              248899999999999999999999999999987 7999


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      |..+|+.++.+|++.|+.+.|.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|++|..   ++..+|++++.+
T Consensus       287 d~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~---~d~~s~n~li~~  363 (857)
T PLN03077        287 DLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET---KDAVSWTAMISG  363 (857)
T ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCeeeHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999975   789999999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      |++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..+.+ .|+.|+..+|+.|+.+|++.|++++
T Consensus       364 ~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~-~g~~~~~~~~n~Li~~y~k~g~~~~  442 (857)
T PLN03077        364 YEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAER-KGLISYVVVANALIEMYSKCKCIDK  442 (857)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHH-hCCCcchHHHHHHHHHHHHcCCHHH
Confidence            999999999999999999999999999999999999999999999999988655 4788888888888888888888777


Q ss_pred             HHHHHHHHHHC------------------------------CC-------------------------------------
Q 038490          242 ALGVKEEMVRD------------------------------KI-------------------------------------  254 (344)
Q Consensus       242 a~~~~~~~~~~------------------------------~~-------------------------------------  254 (344)
                      |.++|++|.+.                              ++                                     
T Consensus       443 A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~  522 (857)
T PLN03077        443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGF  522 (857)
T ss_pred             HHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCc
Confidence            77777665332                              11                                     


Q ss_pred             ----------------------------CCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 038490          255 ----------------------------EMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKE  306 (344)
Q Consensus       255 ----------------------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  306 (344)
                                                  .+|..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.
T Consensus       523 ~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  602 (857)
T PLN03077        523 DGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS  602 (857)
T ss_pred             cceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc
Confidence                                        3456678888888888999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHh-hCCCCCChhhHHHHHHHHhhcCCC
Q 038490          307 EDFEAAFTILDEMG-DKGCKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       307 ~~~~~a~~~~~~~~-~~~~~p~~~~~~~ll~~~~~~g~~  344 (344)
                      |++++|.++|++|. +.|+.|+..+|++++++|++.|++
T Consensus       603 g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~  641 (857)
T PLN03077        603 GMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL  641 (857)
T ss_pred             ChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCH
Confidence            99999999999998 678999999999999999998873

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

Probab=100.00  E-value=2.4e-49  Score=356.00  Aligned_cols=318  Identities=16%  Similarity=0.169  Sum_probs=234.8

Q ss_pred             CchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc
Q 038490            3 TSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus         3 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   82 (344)
                      .++..++..+.+.|++++|+++|++|...+          ..|+..+|+.++.++.+.|..+.+.+++..+.+. |+.||
T Consensus       190 ~t~n~li~~~~~~g~~~~A~~lf~~M~~~g----------~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~-g~~~d  258 (697)
T PLN03081        190 ASWGTIIGGLVDAGNYREAFALFREMWEDG----------SDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKT-GVVGD  258 (697)
T ss_pred             eeHHHHHHHHHHCcCHHHHHHHHHHHHHhC----------CCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHh-CCCcc
Confidence            578899999999999999999999996443          5567777777777777777777777777776665 56777


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILIHG  161 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~  161 (344)
                      ..+++.|+.+|++.|++++|.++|+.|.    ++|..+|+.++.+|++.|+.++|.++|++|.+.+. |+..||+.++.+
T Consensus       259 ~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a  334 (697)
T PLN03081        259 TFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI  334 (697)
T ss_pred             ceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            7777777777777777777777777765    45666777777777777777777777777766655 777777777777


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      |++.|++++|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|.     .||..+|+.||.+|++.|+.++
T Consensus       335 ~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-----~~d~~t~n~lI~~y~~~G~~~~  409 (697)
T PLN03081        335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-----RKNLISWNALIAGYGNHGRGTK  409 (697)
T ss_pred             HHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-----CCCeeeHHHHHHHHHHcCCHHH
Confidence            77777777777777777777777777777777777777777777777777642     3566777777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH-cCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          242 ALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKE-RGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      |.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+++++| 
T Consensus       410 A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~-  488 (697)
T PLN03081        410 AVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA-  488 (697)
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC-
Confidence            777777777777777777777777777777777777777777754 467777777777777777777777777776654 


Q ss_pred             hCCCCCChhhHHHHHHHHhhcCC
Q 038490          321 DKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       321 ~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                        ++.|+..+|++|+.+|..+|+
T Consensus       489 --~~~p~~~~~~~Ll~a~~~~g~  509 (697)
T PLN03081        489 --PFKPTVNMWAALLTACRIHKN  509 (697)
T ss_pred             --CCCCCHHHHHHHHHHHHHcCC
Confidence              456777777777777777665

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.3e-49  Score=363.07  Aligned_cols=318  Identities=18%  Similarity=0.234  Sum_probs=303.2

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      ....++..|.+.|+++.|.++|++|.              +||..+|+.+|.+|++.|++++|.++|++|... |+.||.
T Consensus       123 ~~n~li~~~~~~g~~~~A~~~f~~m~--------------~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~-g~~Pd~  187 (857)
T PLN03077        123 LGNAMLSMFVRFGELVHAWYVFGKMP--------------ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA-GVRPDV  187 (857)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHhcCC--------------CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCh
Confidence            45678889999999999999999992              248899999999999999999999999999987 799999


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      .+|+.++++|+..+++..+.+++..+.+.|+.|+..+++.|+.+|++.|+++.|..+|++|..   ++..+|++++.+|+
T Consensus       188 ~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~---~d~~s~n~li~~~~  264 (857)
T PLN03077        188 YTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR---RDCISWNAMISGYF  264 (857)
T ss_pred             hHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC---CCcchhHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999975   78999999999999


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      +.|++++|+++|++|...|+.||..||+.++.+|++.|+.+.|.+++..+.+ .|+.||..+|+.++.+|++.|++++|.
T Consensus       265 ~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~-~g~~~d~~~~n~Li~~y~k~g~~~~A~  343 (857)
T PLN03077        265 ENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVK-TGFAVDVSVCNSLIQMYLSLGSWGEAE  343 (857)
T ss_pred             hCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHH-hCCccchHHHHHHHHHHHhcCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999665 499999999999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCC
Q 038490          244 GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  323 (344)
                      ++|++|.    .||..+|+.++.+|.+.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|
T Consensus       344 ~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g  419 (857)
T PLN03077        344 KVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG  419 (857)
T ss_pred             HHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhC
Confidence            9999986    468899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCChhhHHHHHHHHhhcCCC
Q 038490          324 CKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       324 ~~p~~~~~~~ll~~~~~~g~~  344 (344)
                      +.|+..+|++|+++|+++|++
T Consensus       420 ~~~~~~~~n~Li~~y~k~g~~  440 (857)
T PLN03077        420 LISYVVVANALIEMYSKCKCI  440 (857)
T ss_pred             CCcchHHHHHHHHHHHHcCCH
Confidence            999999999999999999974

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.95  E-value=2e-25  Score=189.22  Aligned_cols=304  Identities=15%  Similarity=0.103  Sum_probs=251.2

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC--chhH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP--KEII   85 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~   85 (344)
                      .+..+...|++++|+..|+++...           .+.+..++..+...+...|++++|..+++.+.......+  ....
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~-----------~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~  109 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKV-----------DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLA  109 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhc-----------CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            455667789999999999998543           334778899999999999999999999999887521111  1246


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCc-----ccHHHHHH
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA-----CSYNILIH  160 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~  160 (344)
                      +..+...|.+.|++++|..+|+++.+.. +.+..++..++..+...|++++|...++.+....+.+.     ..+..+..
T Consensus       110 ~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~  188 (389)
T PRK11788        110 LQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQ  188 (389)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            7888999999999999999999999865 56788999999999999999999999999987655321     23556777


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      .+.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|.+.++++.+.. ......+++.++.+|.+.|+++
T Consensus       189 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~l~~~~~~~g~~~  266 (389)
T PRK11788        189 QALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQD-PEYLSEVLPKLMECYQALGDEA  266 (389)
T ss_pred             HHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-hhhHHHHHHHHHHHHHHcCCHH
Confidence            8889999999999999998764 3345677788889999999999999999987642 1122456888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc---cCCHHHHHHHHH
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK---EEDFEAAFTILD  317 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~  317 (344)
                      +|...++++.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++..+++
T Consensus       267 ~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~  342 (389)
T PRK11788        267 EGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLR  342 (389)
T ss_pred             HHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHH
Confidence            9999999999874  55566788999999999999999999999886  5888899988887664   568999999999


Q ss_pred             HHhhCCCCCChh
Q 038490          318 EMGDKGCKANPI  329 (344)
Q Consensus       318 ~~~~~~~~p~~~  329 (344)
                      +|.+.++.|++.
T Consensus       343 ~~~~~~~~~~p~  354 (389)
T PRK11788        343 DLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHhCCCC
Confidence            999888888776

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

Probab=99.95  E-value=3.3e-24  Score=201.04  Aligned_cols=317  Identities=11%  Similarity=0.047  Sum_probs=247.0

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+...|++++|+.+++.+..           ..+.+..+|..++.++...|++++|...|+.+.+..  +.+...
T Consensus       571 ~~l~~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~  637 (899)
T TIGR02917       571 LALAQYYLGKGQLKKALAILNEAAD-----------AAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ--PDSALA  637 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH-----------cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHH
Confidence            3455666667777777777766632           233366777778888888888888888888777642  345566


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..+..++...|++++|...|+.+.+.. +.+..++..+...+...|++++|..+++.+....+.+...+..+...+...
T Consensus       638 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  716 (899)
T TIGR02917       638 LLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQ  716 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHC
Confidence            7777777778888888888888877765 556677777888888888888888888888777766777777788888888


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                      |++++|.+.|+++...+  |+..++..+..++.+.|++++|...++++++..  +.+...+..+...|...|++++|...
T Consensus       717 g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~g~~~~A~~~  792 (899)
T TIGR02917       717 KDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH--PNDAVLRTALAELYLAQKDYDKAIKH  792 (899)
T ss_pred             CCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCcCHHHHHHH
Confidence            88888888888887764  444666677788888888888888888877643  56778888888888899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCC
Q 038490          246 KEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCK  325 (344)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  325 (344)
                      |+++.+..+. +..+++.+...+...|+ .+|+..++++...... +..++..+...+...|++++|..+++++.+.+..
T Consensus       793 ~~~~~~~~p~-~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       793 YRTVVKKAPD-NAVVLNNLAWLYLELKD-PRALEYAEKALKLAPN-IPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            9999887644 78888889999999998 7899999988876433 5667778888899999999999999999987643


Q ss_pred             CChhhHHHHHHHHhhcCCC
Q 038490          326 ANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       326 p~~~~~~~ll~~~~~~g~~  344 (344)
                       +..++..+..++.+.|++
T Consensus       870 -~~~~~~~l~~~~~~~g~~  887 (899)
T TIGR02917       870 -AAAIRYHLALALLATGRK  887 (899)
T ss_pred             -ChHHHHHHHHHHHHcCCH
Confidence             889999999999999874

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=99.94  E-value=3.5e-23  Score=194.18  Aligned_cols=314  Identities=11%  Similarity=0.037  Sum_probs=162.0

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      ++..+.+.|++++|+.+++.+..           ..+.+..+|..+...+...|++++|.+.|+++.+..  +.+...+.
T Consensus       437 l~~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~  503 (899)
T TIGR02917       437 LILSYLRSGQFDKALAAAKKLEK-----------KQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE--PDFFPAAA  503 (899)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH-----------hCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC--CCcHHHHH
Confidence            33444445555555555554422           122345556666666666666666666666655431  23344455


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .+...+...|++++|.+.|+.+.+.+ +.+..++..+...+.+.|+.++|..+++++....+.+...+..++..|.+.|+
T Consensus       504 ~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  582 (899)
T TIGR02917       504 NLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQ  582 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCC
Confidence            55555666666666666666665544 44455555555555556666666666655555444444555555555555555


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKE  247 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  247 (344)
                      +++|..+++++.+.. +.+...|..+...+...|++++|...++++.+..  +.+...+..+..++.+.|++++|...++
T Consensus       583 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~  659 (899)
T TIGR02917       583 LKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ--PDSALALLLLADAYAVMKNYAKAITSLK  659 (899)
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            555555555555432 2344455555555555555555555555554432  2334445555555555555555555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC
Q 038490          248 EMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN  327 (344)
Q Consensus       248 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  327 (344)
                      ++.+..+. +..++..++..+...|++++|..+++.+.+.+. ++...+..+...+...|++++|...|+++...+  |+
T Consensus       660 ~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~  735 (899)
T TIGR02917       660 RALELKPD-NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PS  735 (899)
T ss_pred             HHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CC
Confidence            55544322 344455555555555555555555555544432 233444444444445555555555555444432  33


Q ss_pred             hhhHHHHHHHHhhcC
Q 038490          328 PISYNVILGGLCKDG  342 (344)
Q Consensus       328 ~~~~~~ll~~~~~~g  342 (344)
                      ..++..+..++.+.|
T Consensus       736 ~~~~~~l~~~~~~~g  750 (899)
T TIGR02917       736 SQNAIKLHRALLASG  750 (899)
T ss_pred             chHHHHHHHHHHHCC
Confidence            334444444444444

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

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=2.4e-22  Score=170.53  Aligned_cols=283  Identities=15%  Similarity=0.069  Sum_probs=237.0

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC---HHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT---VKFFNTLLN  126 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  126 (344)
                      .......+...|++++|...|+++.+..  +.+..++..+...+...|++++|..+++.+...+..++   ..++..+..
T Consensus        38 ~y~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~  115 (389)
T PRK11788         38 DYFKGLNFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQ  115 (389)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            3334556778899999999999999852  44567888999999999999999999999987542221   256788899


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH----hhHHHHHHHHHhhch
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL----VTFGTLIYGLCLELR  202 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~  202 (344)
                      .|...|+++.|..+|+++.+..+.+..++..++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|+
T Consensus       116 ~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  195 (389)
T PRK11788        116 DYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD  195 (389)
T ss_pred             HHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence            9999999999999999999877777889999999999999999999999999887543322    234566777889999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHH
Q 038490          203 VDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      +++|...++++.+..  +.+...+..+...+.+.|++++|.++++++.+.++.....+++.++.+|...|++++|...++
T Consensus       196 ~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~  273 (389)
T PRK11788        196 LDAARALLKKALAAD--PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLR  273 (389)
T ss_pred             HHHHHHHHHHHHhHC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999987652  445677888889999999999999999999987544345678899999999999999999999


Q ss_pred             HHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          283 EMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       283 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      ++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..+++.++..+..
T Consensus       274 ~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~  327 (389)
T PRK11788        274 RALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLA  327 (389)
T ss_pred             HHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhh
Confidence            99887  466677788999999999999999999999875  6899999988887664

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=1.1e-20  Score=168.26  Aligned_cols=315  Identities=12%  Similarity=0.044  Sum_probs=217.8

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      ++..+.+.|++++|+.+++.+....           +.+...+..++.+....|++++|.+.++++....  +.+...+.
T Consensus        48 ~~~~~~~~g~~~~A~~l~~~~l~~~-----------p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~--P~~~~a~~  114 (656)
T PRK15174         48 FAIACLRKDETDVGLTLLSDRVLTA-----------KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN--VCQPEDVL  114 (656)
T ss_pred             HHHHHHhcCCcchhHHHhHHHHHhC-----------CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC--CCChHHHH
Confidence            4556667788888888887764332           2255666667777777888888888888887742  44456677


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++.+....+.+...+..+ ..+...|+
T Consensus       115 ~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~  192 (656)
T PRK15174        115 LVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSR  192 (656)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCC
Confidence            77788888888888888888888764 55567777788888888888888888887766555444444333 34677788


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH----HH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL----AL  243 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~  243 (344)
                      +++|...++.+.+....++......+..++...|++++|+..++++++..  +.+...+..+...+...|++++    |.
T Consensus       193 ~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~--p~~~~~~~~Lg~~l~~~G~~~eA~~~A~  270 (656)
T PRK15174        193 LPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG--LDGAALRRSLGLAYYQSGRSREAKLQAA  270 (656)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCchhhHHHHH
Confidence            88888888877665433344444455566777888888888888776542  4456667777777777887774    67


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCC
Q 038490          244 GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  323 (344)
                      ..+++..+..+. +...+..+...+...|++++|...+++....... +...+..+..++.+.|++++|...++++.+. 
T Consensus       271 ~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~-  347 (656)
T PRK15174        271 EHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLARE-  347 (656)
T ss_pred             HHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-
Confidence            777777776544 6677777778888888888888888877776432 4455666777777788888888888777764 


Q ss_pred             CCCChhh-HHHHHHHHhhcCC
Q 038490          324 CKANPIS-YNVILGGLCKDGK  343 (344)
Q Consensus       324 ~~p~~~~-~~~ll~~~~~~g~  343 (344)
                       .|+... +..+..++...|+
T Consensus       348 -~P~~~~~~~~~a~al~~~G~  367 (656)
T PRK15174        348 -KGVTSKWNRYAAAALLQAGK  367 (656)
T ss_pred             -CccchHHHHHHHHHHHHCCC
Confidence             344333 2233445555554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=2.1e-20  Score=166.46  Aligned_cols=300  Identities=10%  Similarity=0.021  Sum_probs=245.7

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP   81 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (344)
                      |.....++......|++++|+..|+.+...           .|.+...+..+...+.+.|++++|...++++....  +.
T Consensus        76 ~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~-----------~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~--P~  142 (656)
T PRK15174         76 RDLLRRWVISPLASSQPDAVLQVVNKLLAV-----------NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF--SG  142 (656)
T ss_pred             hhHHHHHhhhHhhcCCHHHHHHHHHHHHHh-----------CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC
Confidence            344566777788899999999999998443           33477889999999999999999999999998742  44


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILIH  160 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~  160 (344)
                      +...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+....+ ++......+..
T Consensus       143 ~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~  220 (656)
T PRK15174        143 NSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVD  220 (656)
T ss_pred             cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHH
Confidence            56788889999999999999999999887765 3444444444 347889999999999999877654 34444555678


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH----HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE----ALKLKEDIMRVYNVKPDGQVFASLIKGLCAV  236 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  236 (344)
                      .+...|++++|+..++++.... +.+...+..+...+...|++++    |...++++++..  +.+...+..+...+.+.
T Consensus       221 ~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~  297 (656)
T PRK15174        221 TLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN--SDNVRIVTLYADALIRT  297 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHC
Confidence            8899999999999999999874 3356777788889999999986    899999988753  45678899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCCHHHHHHH
Q 038490          237 GELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNS-VTYNALISGFCKEEDFEAAFTI  315 (344)
Q Consensus       237 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~  315 (344)
                      |++++|...+++..+..+. +...+..+..++...|++++|...++++...+  |+. ..+..+..++...|+.++|...
T Consensus       298 g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~  374 (656)
T PRK15174        298 GQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESV  374 (656)
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999988655 67788889999999999999999999998874  443 3344456788999999999999


Q ss_pred             HHHHhhC
Q 038490          316 LDEMGDK  322 (344)
Q Consensus       316 ~~~~~~~  322 (344)
                      |++..+.
T Consensus       375 l~~al~~  381 (656)
T PRK15174        375 FEHYIQA  381 (656)
T ss_pred             HHHHHHh
Confidence            9999864

>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=99.87  E-value=1.8e-18  Score=154.37  Aligned_cols=318  Identities=11%  Similarity=-0.024  Sum_probs=200.3

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      ..+..+.+.|++++|+..|++.....            |+...|..+..+|.+.|++++|++.++...+..  +.+...+
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~~~------------p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~  197 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIECK------------PDPVYYSNRAACHNALGDWEKVVEDTTAALELD--PDYSKAL  197 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC------------CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC--CCCHHHH
Confidence            44666677777777777777753321            244566667777777777777777777766532  2234455


Q ss_pred             HHHHHHHHhcccHHHHHH--------------------------------------------------------------
Q 038490           87 CNVIGFYGRARLLERALQ--------------------------------------------------------------  104 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~--------------------------------------------------------------  104 (344)
                      ..+..++...|++++|+.                                                              
T Consensus       198 ~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  277 (615)
T TIGR00990       198 NRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRP  277 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcch
Confidence            555566666666555543                                                              


Q ss_pred             --------------------------------------HHHHHHhcC-C-CCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490          105 --------------------------------------MFDEMSSFN-V-QMTVKFFNTLLNPKLTCGKLDRMKELFQIM  144 (344)
Q Consensus       105 --------------------------------------~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  144 (344)
                                                            .|+...+.+ . +.....+..+..++...|++++|...+++.
T Consensus       278 ~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~ka  357 (615)
T TIGR00990       278 AGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKS  357 (615)
T ss_pred             hhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                                                  333333221 1 112334555556666677777777777777


Q ss_pred             hccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHH
Q 038490          145 EKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ  224 (344)
Q Consensus       145 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  224 (344)
                      ....+.....|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...|++.++..  +.+..
T Consensus       358 l~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~--P~~~~  434 (615)
T TIGR00990       358 IELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD--PDFIF  434 (615)
T ss_pred             HHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--ccCHH
Confidence            76655556667777777777777777777777776653 2245666667777777778888888777766542  34456


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChh------hHHH
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSV------TYNA  298 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~------~~~~  298 (344)
                      .+..+..++.+.|++++|+..+++..+..+. +...++.+...+...|++++|+..|++........+..      .++.
T Consensus       435 ~~~~la~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~  513 (615)
T TIGR00990       435 SHIQLGVTQYKEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINK  513 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHH
Confidence            6667777777778888888888777765433 56777777777888888888888887776653221111      1111


Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          299 LISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       299 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      .+..+...|++++|..++++..+.. +.+...+..+...+.+.|+
T Consensus       514 a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~  557 (615)
T TIGR00990       514 ALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGD  557 (615)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccC
Confidence            1222334577888888887776643 1234457777777777775

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.86  E-value=4.9e-18  Score=161.25  Aligned_cols=300  Identities=9%  Similarity=-0.037  Sum_probs=199.5

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH-
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF-   86 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-   86 (344)
                      .+..+...|++++|+..|++..+.           .+.+..++..+..++.+.|++++|+..|++..+...-.+....+ 
T Consensus       275 ~G~~~~~~g~~~~A~~~l~~aL~~-----------~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~  343 (1157)
T PRK11447        275 QGLAAVDSGQGGKAIPELQQAVRA-----------NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWE  343 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHH
Confidence            356677889999999999987443           33378888999999999999999999999988643111111111 


Q ss_pred             -----------HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccH
Q 038490           87 -----------CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSY  155 (344)
Q Consensus        87 -----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  155 (344)
                                 ......+.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|++.|+++.+..+.+...+
T Consensus       344 ~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~  422 (1157)
T PRK11447        344 SLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAV  422 (1157)
T ss_pred             HHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence                       122445667888888888888888775 55667777788888888888888888888876655444333


Q ss_pred             HHHH------------------------------------------HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHH
Q 038490          156 NILI------------------------------------------HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTL  193 (344)
Q Consensus       156 ~~l~------------------------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  193 (344)
                      ..+.                                          ..+...|++++|++.|++..+.... +...+..+
T Consensus       423 ~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~L  501 (1157)
T PRK11447        423 RGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRL  501 (1157)
T ss_pred             HHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3222                                          2344567788888888887766322 44556667


Q ss_pred             HHHHHhhchHHHHHHHHHHHHHhcCCC-----------------------------------------------------
Q 038490          194 IYGLCLELRVDEALKLKEDIMRVYNVK-----------------------------------------------------  220 (344)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------------------------------------  220 (344)
                      ...+.+.|++++|...++++++...-.                                                     
T Consensus       502 A~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~  581 (1157)
T PRK11447        502 AQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETAN  581 (1157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHH
Confidence            777788888888888877765432111                                                     


Q ss_pred             -------------------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHH
Q 038490          221 -------------------PDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL  281 (344)
Q Consensus       221 -------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  281 (344)
                                         .+...+..+...+.+.|++++|+..|+++.+..+. +...+..++..+...|++++|...+
T Consensus       582 ~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l  660 (1157)
T PRK11447        582 RLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQL  660 (1157)
T ss_pred             HHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                               11122333444555666667777777766665443 5666677777777777777777777


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          282 KEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       282 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      +...+... .+...+..+..++...|++++|.++++++...
T Consensus       661 ~~ll~~~p-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        661 AKLPATAN-DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHhccCC-CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            76655421 13444555666667777777777777777653

>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=99.85  E-value=6.1e-18  Score=151.08  Aligned_cols=234  Identities=10%  Similarity=0.029  Sum_probs=192.8

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..+..+...+...|++++|+..|+..++.. +.....|..+..++...|++++|...|+...+..+.+...|..+...+.
T Consensus       332 ~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~  410 (615)
T TIGR00990       332 IALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHF  410 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            345566667778999999999999999875 4457788899999999999999999999998887778889999999999


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      ..|++++|...|++..+.. +.+...+..+...+.+.|++++|+..+++.++..  +.+...++.+...+...|++++|.
T Consensus       411 ~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~  487 (615)
T TIGR00990       411 IKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF--PEAPDVYNYYGELLLDQNKFDEAI  487 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHH
Confidence            9999999999999998874 3356677778888999999999999999988753  556788999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHH------HHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHH
Q 038490          244 GVKEEMVRDKIEMDAG------IYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILD  317 (344)
Q Consensus       244 ~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  317 (344)
                      ..|++........+..      .++.....+...|++++|..++++....... +...+..+...+.+.|++++|...|+
T Consensus       488 ~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~-~~~a~~~la~~~~~~g~~~eAi~~~e  566 (615)
T TIGR00990       488 EKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPE-CDIAVATMAQLLLQQGDVDEALKLFE  566 (615)
T ss_pred             HHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            9999998865432111      1222233344579999999999998887532 45678889999999999999999999


Q ss_pred             HHhhC
Q 038490          318 EMGDK  322 (344)
Q Consensus       318 ~~~~~  322 (344)
                      +..+.
T Consensus       567 ~A~~l  571 (615)
T TIGR00990       567 RAAEL  571 (615)
T ss_pred             HHHHH
Confidence            98764

>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=1.2e-18  Score=144.35  Aligned_cols=296  Identities=14%  Similarity=0.061  Sum_probs=169.1

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      +++.++..+...|++++|+.+++.+.+..           +....+|-.+..++...|+.+.|.+.|....+   +.|+.
T Consensus       118 ~ysn~aN~~kerg~~~~al~~y~~aiel~-----------p~fida~inla~al~~~~~~~~a~~~~~~alq---lnP~l  183 (966)
T KOG4626|consen  118 AYSNLANILKERGQLQDALALYRAAIELK-----------PKFIDAYINLAAALVTQGDLELAVQCFFEALQ---LNPDL  183 (966)
T ss_pred             HHHHHHHHHHHhchHHHHHHHHHHHHhcC-----------chhhHHHhhHHHHHHhcCCCcccHHHHHHHHh---cCcch
Confidence            57778899999999999999999975443           23788898999999999999999988888776   34554


Q ss_pred             hHH-HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           84 IIF-CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        84 ~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ... +.+.......|+.++|...|.+.++.. +.-...|..|...+...|+...|++-|++.....+.-...|..|...|
T Consensus       184 ~ca~s~lgnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~  262 (966)
T KOG4626|consen  184 YCARSDLGNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVY  262 (966)
T ss_pred             hhhhcchhHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHH
Confidence            332 233444445666666666666665543 223345666666666666666666666666655554455555566666


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHH
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  241 (344)
                      ...+.+++|...+.+..... +-....+..+...|...|..+-|+..|++.+..   .|+ ...|+.|..++-..|+..+
T Consensus       263 ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~---~P~F~~Ay~NlanALkd~G~V~e  338 (966)
T KOG4626|consen  263 KEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL---QPNFPDAYNNLANALKDKGSVTE  338 (966)
T ss_pred             HHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhc---CCCchHHHhHHHHHHHhccchHH
Confidence            65566666655555554431 112333444444455555555555555554432   222 3445555555555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          242 ALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      |.+.+.+.+...+. .....+.|...|...|.+++|..+|....+-... =...++.|...|.++|++++|+..|++.+
T Consensus       339 a~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal  415 (966)
T KOG4626|consen  339 AVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEAL  415 (966)
T ss_pred             HHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHH
Confidence            55555555544322 3444445555555555555555555544443111 12234444444444455555544444444

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.83  E-value=3.8e-17  Score=155.23  Aligned_cols=297  Identities=9%  Similarity=-0.038  Sum_probs=222.7

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      .+..+.+.|++++|+..|+++...           .+.+..++..+..++...|++++|++.|+++.+..  +.+...+.
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~-----------~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~  423 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQV-----------DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVR  423 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHH
Confidence            356677899999999999998443           23367788889999999999999999999988742  22333333


Q ss_pred             HH------------------------------------------HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           88 NV------------------------------------------IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        88 ~l------------------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      .+                                          ...+...|++++|++.|++..+.. +-+...+..+.
T Consensus       424 ~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA  502 (1157)
T PRK11447        424 GLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLA  502 (1157)
T ss_pred             HHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            22                                          233446788899999999888876 55677788888


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC------------------------
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR------------------------  181 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------  181 (344)
                      ..|.+.|++++|...++++....+.+...+..+...+...++.++|...++.+...                        
T Consensus       503 ~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~  582 (1157)
T PRK11447        503 QDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANR  582 (1157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHH
Confidence            89999999999999999887765545444444444444445555554444432110                        


Q ss_pred             ---------------CCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          182 ---------------RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       182 ---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                                     ..+.+...+..+...+.+.|++++|+..|+++++..  +.+...+..++..+...|++++|++.+
T Consensus       583 l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~--P~~~~a~~~la~~~~~~g~~~eA~~~l  660 (1157)
T PRK11447        583 LRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE--PGNADARLGLIEVDIAQGDLAAARAQL  660 (1157)
T ss_pred             HHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                           023344556667788889999999999999988753  556888999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCC--C---ChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          247 EEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCK--P---NSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       247 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +.+.+.... +...+..+..++...|++++|.++++++......  |   +...+..+...+...|++++|+..|++...
T Consensus       661 ~~ll~~~p~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        661 AKLPATAND-SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHhccCCC-ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            988876433 6677788889999999999999999999876322  1   224556667888999999999999999863

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

Probab=99.83  E-value=3.2e-18  Score=141.74  Aligned_cols=281  Identities=13%  Similarity=0.051  Sum_probs=217.1

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTL  124 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  124 (344)
                      =..+|..+...+-..|+...|++.|++..+   +.|+ ...|..|...|...+.+++|...|.+..... +....++..+
T Consensus       217 fAiawsnLg~~f~~~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNl  292 (966)
T KOG4626|consen  217 FAIAWSNLGCVFNAQGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNL  292 (966)
T ss_pred             eeeeehhcchHHhhcchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Ccchhhccce
Confidence            344566677777777777777777777765   3444 4677778888888888888888887777653 4445677777


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      ...|...|.++.|...+++..+..+.-...|+.|..++-..|++.+|.+.+.+..... +--..+.+.|...+...|.++
T Consensus       293 a~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e  371 (966)
T KOG4626|consen  293 ACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIE  371 (966)
T ss_pred             EEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccch
Confidence            7788888888888888888888777677788899999988999999999998887763 224556778888888999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          205 EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      .|..+|...+.-.  +.-...++.|...|-+.|++++|+..+++.++-.+. -...|+.+...|-..|+++.|++.+.+.
T Consensus       372 ~A~~ly~~al~v~--p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~-fAda~~NmGnt~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  372 EATRLYLKALEVF--PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPT-FADALSNMGNTYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             HHHHHHHHHHhhC--hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCch-HHHHHHhcchHHHHhhhHHHHHHHHHHH
Confidence            9999998876532  333667888888999999999999999998876433 4678888999999999999999999988


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCCh-hhHHHHHHH
Q 038490          285 KERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANP-ISYNVILGG  337 (344)
Q Consensus       285 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~  337 (344)
                      +..++. =...++.|...|...|+..+|+.-|++..+  ++||. ..|..++.+
T Consensus       449 I~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpdA~cNllh~  499 (966)
T KOG4626|consen  449 IQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPDAYCNLLHC  499 (966)
T ss_pred             HhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCchhhhHHHHH
Confidence            876432 346788899999999999999999999987  46655 345555543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=1.7e-16  Score=144.49  Aligned_cols=320  Identities=13%  Similarity=-0.019  Sum_probs=215.5

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      ...++..+.+.|++++|+.+|+.+...           .+.+...+..++.++...|++++|+..++++.+..  +.+..
T Consensus        52 ~~~lA~~~~~~g~~~~A~~~~~~al~~-----------~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~--P~~~~  118 (765)
T PRK10049         52 YAAVAVAYRNLKQWQNSLTLWQKALSL-----------EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA--PDKAN  118 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHH
Confidence            466777888889999999999886333           23366777788888888999999999999888752  44555


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH-----------------------
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELF-----------------------  141 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-----------------------  141 (344)
                       +..+..++...|+.++|+..++++.+.. +.+...+..+..++...+..+.|...+                       
T Consensus       119 -~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r  196 (765)
T PRK10049        119 -LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVR  196 (765)
T ss_pred             -HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence             7778888888899999999999888875 455666666666666555555444333                       


Q ss_pred             -----------------------HHHhccCC--CCcc-cHH----HHHHHHHhhCChhHHHHHHHHHhhCCCC-cCHhhH
Q 038490          142 -----------------------QIMEKYVS--PDAC-SYN----ILIHGCVVSRRLEDAWKVFDEMVKRRLQ-PTLVTF  190 (344)
Q Consensus       142 -----------------------~~~~~~~~--~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~  190 (344)
                                             +.+....+  |+.. .+.    ..+..+...|++++|+..|+++.+.+.+ |+. ..
T Consensus       197 ~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~  275 (765)
T PRK10049        197 LSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQ  275 (765)
T ss_pred             hhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HH
Confidence                                   33332211  2111 111    1123445668888888888888877532 322 12


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----------CCC
Q 038490          191 GTLIYGLCLELRVDEALKLKEDIMRVYNVKP--DGQVFASLIKGLCAVGELSLALGVKEEMVRDKI-----------EMD  257 (344)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~  257 (344)
                      ..+..++...|++++|+..|+++++.....+  .......+..++...|++++|..+++.+....+           .|+
T Consensus       276 ~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~  355 (765)
T PRK10049        276 RWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPN  355 (765)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCC
Confidence            2245678888888888888888765422111  134455666677888888888888888876532           122


Q ss_pred             ---HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC-hhhHHH
Q 038490          258 ---AGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN-PISYNV  333 (344)
Q Consensus       258 ---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~  333 (344)
                         ...+..+...+...|+.++|+.+++++....+. +...+..+...+...|++++|++.+++..+.  .|+ ...+..
T Consensus       356 ~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~  432 (765)
T PRK10049        356 DDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVE  432 (765)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHH
Confidence               234556677788888888888888888776433 6677778888888888888888888888874  354 445555


Q ss_pred             HHHHHhhcCC
Q 038490          334 ILGGLCKDGK  343 (344)
Q Consensus       334 ll~~~~~~g~  343 (344)
                      +...+.+.|+
T Consensus       433 ~a~~al~~~~  442 (765)
T PRK10049        433 QAWTALDLQE  442 (765)
T ss_pred             HHHHHHHhCC
Confidence            5555555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.79  E-value=9.8e-16  Score=139.59  Aligned_cols=319  Identities=9%  Similarity=-0.023  Sum_probs=232.9

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      ...+..-.|+.++|++++..+.+.           .+.+...+..+..++...|++++|.+++++..+..  +.+...+.
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~-----------~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~   87 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVH-----------MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE--PQNDDYQR   87 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh-----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHH
Confidence            356677789999999999998431           23366679999999999999999999999988752  45567778


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .++.++...|++++|+..++++.+.. +.+.. +..+..++...|+.++|...++++....+.+...+..+..++...+.
T Consensus        88 ~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         88 GLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            88899999999999999999999875 66677 88899999999999999999999999888777777777777766666


Q ss_pred             hhHHHHHHH----------------------------------------------HHhhC-CCCcCHh-hHH----HHHH
Q 038490          168 LEDAWKVFD----------------------------------------------EMVKR-RLQPTLV-TFG----TLIY  195 (344)
Q Consensus       168 ~~~a~~~~~----------------------------------------------~~~~~-~~~~~~~-~~~----~l~~  195 (344)
                      .+.|+..++                                              .+.+. ...|+.. .+.    ..+.
T Consensus       166 ~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~  245 (765)
T PRK10049        166 SAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLG  245 (765)
T ss_pred             hHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHH
Confidence            665554444                                              33322 1112211 111    1123


Q ss_pred             HHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHHcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM---DAGIYSSLISALFKAG  272 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g  272 (344)
                      ++...|++++|+..|+.+++.....|+. ....+...+...|++++|+..|+++.+.....   .......+..++...|
T Consensus       246 ~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        246 ALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc
Confidence            4456788999999999977653222332 22224667888999999999999987654321   1345666777888999


Q ss_pred             CcCcHHHHHHHHHHcCC-----------CCC---hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 038490          273 RKNEFPAILKEMKERGC-----------KPN---SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGL  338 (344)
Q Consensus       273 ~~~~a~~~~~~~~~~~~-----------~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~  338 (344)
                      ++++|...++.+.....           .|+   ...+..+...+...|+.++|+++++++... .+-+...+..+...+
T Consensus       325 ~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~  403 (765)
T PRK10049        325 NYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVL  403 (765)
T ss_pred             cHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHH
Confidence            99999999998887631           122   123455667888899999999999999875 233566777777777


Q ss_pred             hhcCC
Q 038490          339 CKDGK  343 (344)
Q Consensus       339 ~~~g~  343 (344)
                      ...|+
T Consensus       404 ~~~g~  408 (765)
T PRK10049        404 QARGW  408 (765)
T ss_pred             HhcCC
Confidence            77665

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

Probab=99.79  E-value=1.6e-18  Score=139.77  Aligned_cols=262  Identities=10%  Similarity=0.059  Sum_probs=80.8

Q ss_pred             HHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 038490           52 LIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC  131 (344)
Q Consensus        52 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  131 (344)
                      .+...+.+.|++++|.++++.......-+.+...|..+...+...++++.|.+.++.+...+ +-+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            34556666666666666664433220012233344444555556666666666666666554 3344555555555 566


Q ss_pred             CChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC-CCcCHhhHHHHHHHHHhhchHHHHHHHH
Q 038490          132 GKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR-LQPTLVTFGTLIYGLCLELRVDEALKLK  210 (344)
Q Consensus       132 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (344)
                      +++++|..++...-+.. ++...+..++..+.+.++++++..+++.+.... .+.+...|..+...+.+.|+.++|+..+
T Consensus        91 ~~~~~A~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD-GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccccc-cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            66666666665543322 344555556666666666666666666655432 2334555556666666666777777777


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCC
Q 038490          211 EDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCK  290 (344)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  290 (344)
                      +++++..  +.+......++..+...|+.+++.++++...+.. +.|+..+..+..++...|+.++|...|++.......
T Consensus       170 ~~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  170 RKALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             HHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccccc
Confidence            6666542  3345556666666666666666666666665543 234455666666666667777777777666665322


Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          291 PNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       291 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                       |+.....+..++...|+.++|..+.++..
T Consensus       247 -d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  247 -DPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             --HHHHHHHHHHHT----------------
T ss_pred             -ccccccccccccccccccccccccccccc
Confidence             55666666666666777777766666554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.78  E-value=2.3e-15  Score=126.97  Aligned_cols=285  Identities=11%  Similarity=0.061  Sum_probs=208.8

Q ss_pred             cccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH--HHH
Q 038490           13 RLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC--NVI   90 (344)
Q Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~   90 (344)
                      ...|++++|.+.+.......+           .....|.....+..+.|+++.|.+.+.++.+.   .|+.....  ...
T Consensus        95 ~~eGd~~~A~k~l~~~~~~~~-----------~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~---~~~~~~~~~l~~a  160 (398)
T PRK10747         95 LAEGDYQQVEKLMTRNADHAE-----------QPVVNYLLAAEAAQQRGDEARANQHLERAAEL---ADNDQLPVEITRV  160 (398)
T ss_pred             HhCCCHHHHHHHHHHHHhccc-----------chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCcchHHHHHHHH
Confidence            346899999888876522211           01223444455558889999999999988764   45554333  336


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcc--------cHHHHHHHH
Q 038490           91 GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDAC--------SYNILIHGC  162 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~l~~~~  162 (344)
                      ..+...|+++.|.+.++.+.+.+ |-+......+...|.+.|++++|..++..+.+....+..        +|..++...
T Consensus       161 ~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~  239 (398)
T PRK10747        161 RIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA  239 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            67888899999999999998876 667788888889999999999999999998877653332        233334434


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      ....+.+...++++.+.+. .+.++.....+...+...|+.++|...+++.++.   +++....  ++.+....++.+++
T Consensus       240 ~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~a  313 (398)
T PRK10747        240 MADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQL  313 (398)
T ss_pred             HHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHH
Confidence            4445566666666665443 3446777778888889999999999999887763   4555332  23333456888999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .+..+...+..+. |+..+..+...|.+.+++++|.+.|+...+.  .|+...+..+...+.+.|+.++|.+++++-..
T Consensus       314 l~~~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        314 EKVLRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999988887655 7778888899999999999999999998886  58888888888999999999999999887754

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

Probab=99.77  E-value=4.1e-18  Score=137.42  Aligned_cols=250  Identities=15%  Similarity=0.155  Sum_probs=110.4

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFN-VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      .+...+.+.|++++|.++++...... .+.+...|..+.......++++.|...++++...++.+...+..++.. ...+
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            56788889999999999996554433 244556666777778888999999999999988776667777777777 7889


Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                      ++++|.+++++..+..  ++...+...+..+...++++++..+++.+......+.+...|..+...+.+.|+.++|.+.+
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999988876653  45666777888888999999999999987765455667888888888999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCC
Q 038490          247 EEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKA  326 (344)
Q Consensus       247 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  326 (344)
                      ++..+..+. |......++..+...|+.+++..++....... +.|+..+..+..++...|+.++|+.++++..+.. +.
T Consensus       170 ~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  170 RKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             HHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cc
Confidence            999988654 68888889999999999999888888887764 3466778888899999999999999999988752 33


Q ss_pred             ChhhHHHHHHHHhhcCC
Q 038490          327 NPISYNVILGGLCKDGK  343 (344)
Q Consensus       327 ~~~~~~~ll~~~~~~g~  343 (344)
                      |+.....+..++...|+
T Consensus       247 d~~~~~~~a~~l~~~g~  263 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGR  263 (280)
T ss_dssp             -HHHHHHHHHHHT----
T ss_pred             ccccccccccccccccc
Confidence            78888888888888886

>TIGR00540 hemY_coli hemY protein

Probab=99.77  E-value=2.7e-15  Score=127.16  Aligned_cols=294  Identities=12%  Similarity=-0.008  Sum_probs=209.6

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh--HH
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI--IF   86 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~   86 (344)
                      +.+....|+++.|.+.+.......+           -....+-....+..+.|+++.|.+.+.+..+.   .|+..  ..
T Consensus        91 glla~~~g~~~~A~~~l~~~~~~~~-----------~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~---~p~~~l~~~  156 (409)
T TIGR00540        91 ALLKLAEGDYAKAEKLIAKNADHAA-----------EPVLNLIKAAEAAQQRGDEARANQHLEEAAEL---AGNDNILVE  156 (409)
T ss_pred             HHHHHhCCCHHHHHHHHHHHhhcCC-----------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCcCchHHH
Confidence            3445567999999999977633221           13444555667888889999999999998764   34543  33


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHH-HHH---HH
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNI-LIH---GC  162 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-l~~---~~  162 (344)
                      ......+...|+++.|.+.++.+.+.+ |-+..+...+...+...|+++.|.+.+..+.+.+..+...+.. -..   ..
T Consensus       157 ~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~  235 (409)
T TIGR00540       157 IARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGL  235 (409)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            345778888999999999999999886 6677888899999999999999999999998876554444421 111   12


Q ss_pred             HhhCChhHHHHHHHHHhhCCC---CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHH---HHHHHHHHHhc
Q 038490          163 VVSRRLEDAWKVFDEMVKRRL---QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQV---FASLIKGLCAV  236 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~  236 (344)
                      ...+..+...+.+..+.+...   +.+...+..+...+...|+.++|.+.+++.++..   |+...   ...........
T Consensus       236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~---pd~~~~~~~~l~~~~~l~~  312 (409)
T TIGR00540       236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL---GDDRAISLPLCLPIPRLKP  312 (409)
T ss_pred             HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC---CCcccchhHHHHHhhhcCC
Confidence            333333334445555554421   1367778888888999999999999999988753   33321   11111122345


Q ss_pred             CChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHH
Q 038490          237 GELSLALGVKEEMVRDKIEMDA--GIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFT  314 (344)
Q Consensus       237 ~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  314 (344)
                      ++.+.+.+.++...+..+. |+  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+
T Consensus       313 ~~~~~~~~~~e~~lk~~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~  391 (409)
T TIGR00540       313 EDNEKLEKLIEKQAKNVDD-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAA  391 (409)
T ss_pred             CChHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            7788888888888876443 55  66778889999999999999999964444446888888899999999999999999


Q ss_pred             HHHHHhh
Q 038490          315 ILDEMGD  321 (344)
Q Consensus       315 ~~~~~~~  321 (344)
                      ++++...
T Consensus       392 ~~~~~l~  398 (409)
T TIGR00540       392 MRQDSLG  398 (409)
T ss_pred             HHHHHHH
Confidence            9988643

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

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=9.5e-15  Score=131.36  Aligned_cols=180  Identities=12%  Similarity=-0.040  Sum_probs=102.1

Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHHhc
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN----VKPDGQVFASLIKGLCAV  236 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~  236 (344)
                      ++...|++.++++.|+.+...|.+....+-..+.++|...+++++|..+++.+....+    .+++......|..++...
T Consensus       301 aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~  380 (822)
T PRK14574        301 ALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNES  380 (822)
T ss_pred             HHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhc
Confidence            4445566666666666666665544455555666666666777777777766655432    122333345566666667


Q ss_pred             CChHHHHHHHHHHHHCCC-----------CC--CH-HHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038490          237 GELSLALGVKEEMVRDKI-----------EM--DA-GIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISG  302 (344)
Q Consensus       237 ~~~~~a~~~~~~~~~~~~-----------~~--~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  302 (344)
                      +++++|..+++.+.+..+           .|  |- ..+..++..+...|+..+|++.++++....+. |......+...
T Consensus       381 e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~-n~~l~~~~A~v  459 (822)
T PRK14574        381 EQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPA-NQNLRIALASI  459 (822)
T ss_pred             ccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            777777777776665311           11  11 12333455566667777777777776655432 66666666666


Q ss_pred             HhccCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHhhcCC
Q 038490          303 FCKEEDFEAAFTILDEMGDKGCKA-NPISYNVILGGLCKDGK  343 (344)
Q Consensus       303 ~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~  343 (344)
                      +...|.+.+|++.++.....  .| +..+......++...|+
T Consensus       460 ~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l~e  499 (822)
T PRK14574        460 YLARDLPRKAEQELKAVESL--APRSLILERAQAETAMALQE  499 (822)
T ss_pred             HHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhhhh
Confidence            66777777777777555443  33 33444444444444443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.76  E-value=1.2e-14  Score=133.33  Aligned_cols=300  Identities=9%  Similarity=-0.017  Sum_probs=226.4

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCC---chHHHHH------------
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKM---FDEMQQI------------   69 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~------------   69 (344)
                      ...+.....++|+.++|.++|+...+.+.        .-..+...-..++..|.+.+.   ..++..+            
T Consensus       379 l~q~~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  450 (987)
T PRK09782        379 LDQLTWQLMQNGQSREAADLLLQRYPFQG--------DARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQW  450 (987)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHhcCCCc--------ccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHH
Confidence            34566778889999999999999866321        122244455567777777655   2233222            


Q ss_pred             ----------HHHhhhcCCC-CC--chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490           70 ----------LHQLKHDTRI-VP--KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDR  136 (344)
Q Consensus        70 ----------~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  136 (344)
                                .+......+. ++  +...|..+..++.. ++.++|...+.......  |+......+...+...|++++
T Consensus       451 ~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~ee  527 (987)
T PRK09782        451 QSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYAT  527 (987)
T ss_pred             HhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHH
Confidence                      2222222122 33  56677778877776 88889999888887763  555444445556678999999


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          137 MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       137 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      |...++++... +++...+..+...+.+.|+.++|...+++..+.+ +.....+..+.......|++++|...+++.++.
T Consensus       528 Ai~~~rka~~~-~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l  605 (987)
T PRK09782        528 ALAAWQKISLH-DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI  605 (987)
T ss_pred             HHHHHHHHhcc-CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            99999998665 3444556677888899999999999999998874 223333333333444569999999999998865


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhH
Q 038490          217 YNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTY  296 (344)
Q Consensus       217 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  296 (344)
                         .|+...+..+..++.+.|++++|+..+++.....+. +...++.+..++...|++++|+..+++..+..+. +...+
T Consensus       606 ---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~-~~~a~  680 (987)
T PRK09782        606 ---APSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGLPD-DPALI  680 (987)
T ss_pred             ---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHH
Confidence               467888999999999999999999999999998755 7888899999999999999999999999987543 67788


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          297 NALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       297 ~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      ..+..++...|++++|+..+++..+.
T Consensus       681 ~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        681 RQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            89999999999999999999999874

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.76  E-value=5.8e-15  Score=135.35  Aligned_cols=263  Identities=11%  Similarity=-0.004  Sum_probs=211.8

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...|..+..++.. ++.++|...+.+....   .|+......+...+...|++++|...|+++...  +|+...+..+.
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~---~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la  549 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR---QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAA  549 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh---CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHH
Confidence            67788888888887 8999999988887764   466554444566667899999999999998664  45555667778


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      .++.+.|+.++|...++...+..+.....+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++
T Consensus       550 ~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        550 NTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            88999999999999999998866544444444444455669999999999999876  4567888889999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHH
Q 038490          206 ALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMK  285 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  285 (344)
                      |+..+++.+...  +.+...++.+...+...|++++|+..+++..+..+. +...+..+..++...|++++|+..+++..
T Consensus       628 A~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~~l~~Al  704 (987)
T PRK09782        628 AVSDLRAALELE--PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQHYARLVI  704 (987)
T ss_pred             HHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999988753  556778888888999999999999999999998665 78899999999999999999999999999


Q ss_pred             HcCCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          286 ERGCKPNS-VTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       286 ~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +..  |+. .+.........+..+++.+.+-+++...
T Consensus       705 ~l~--P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        705 DDI--DNQALITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             hcC--CCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            874  433 4444555666677777888777776654

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

Probab=99.76  E-value=2.7e-15  Score=115.09  Aligned_cols=292  Identities=15%  Similarity=0.118  Sum_probs=219.5

Q ss_pred             cccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch--hHHHHHH
Q 038490           13 RLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE--IIFCNVI   90 (344)
Q Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~   90 (344)
                      .-.+++++|.++|-.+.+.           .+.+..+..++...|.+.|..++|+++.+.+..+.+...+.  .....|.
T Consensus        46 LLs~Q~dKAvdlF~e~l~~-----------d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~  114 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQE-----------DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLG  114 (389)
T ss_pred             HhhcCcchHHHHHHHHHhc-----------CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            3467899999999998443           33377788889999999999999999999998864443333  3345678


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCC-----cccHHHHHHHHHhh
Q 038490           91 GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPD-----ACSYNILIHGCVVS  165 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~  165 (344)
                      .-|-..|-++.|+.+|..+.+.+ .--......|+..|-...+|++|..+-+++...++.+     ...|--+...+...
T Consensus       115 ~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~  193 (389)
T COG2956         115 RDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALAS  193 (389)
T ss_pred             HHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhh
Confidence            88899999999999999999866 5556788899999999999999999999887755411     12234455555667


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                      .+++.|..++.+..+.+.+ .+..--.+.+.....|+++.|++.++.+.++ +..--+.+...|..+|.+.|+.++....
T Consensus       194 ~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~f  271 (389)
T COG2956         194 SDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNF  271 (389)
T ss_pred             hhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            8899999999999887433 2333334557788899999999999998776 2233356788899999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc---cCCHHHHHHHHHHHhhC
Q 038490          246 KEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK---EEDFEAAFTILDEMGDK  322 (344)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  322 (344)
                      +..+.+...  ....-..+...-......+.|...+.+-..+  +|+...+..++.....   .|...+.+..+++|...
T Consensus       272 L~~~~~~~~--g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         272 LRRAMETNT--GADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHccC--CccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            999988743  3344445555555555566777766665555  6899999999987653   45677788888888643

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.74  E-value=2.1e-14  Score=121.09  Aligned_cols=270  Identities=8%  Similarity=0.079  Sum_probs=209.4

Q ss_pred             cCCchHHHHHHHHhhhcCCCCCchhHHHH-HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH--HHHHHHHhcCChHH
Q 038490           60 AKMFDEMQQILHQLKHDTRIVPKEIIFCN-VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN--TLLNPKLTCGKLDR  136 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~  136 (344)
                      .|+++.|.+.+....+.   .+++..+.. ...+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.
T Consensus        97 eGd~~~A~k~l~~~~~~---~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~  171 (398)
T PRK10747         97 EGDYQQVEKLMTRNADH---AEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             CCCHHHHHHHHHHHHhc---ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHH
Confidence            59999999888876553   223333333 345558999999999999999875  45543333  44678899999999


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH-------hhHHHHHHHHHhhchHHHHHHH
Q 038490          137 MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL-------VTFGTLIYGLCLELRVDEALKL  209 (344)
Q Consensus       137 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  209 (344)
                      |...++++.+..|.+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       172 Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        172 ARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999999999998888999999999999999999999999999988655322       1233334333344455666666


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCC
Q 038490          210 KEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGC  289 (344)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  289 (344)
                      ++.+.+.  .+.++.....+...+...|+.++|.+++++..+.  .++....  ++.+....++.+++....+...+..+
T Consensus       252 w~~lp~~--~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P  325 (398)
T PRK10747        252 WKNQSRK--TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHG  325 (398)
T ss_pred             HHhCCHH--HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCC
Confidence            6664332  3567888899999999999999999999999885  4455322  33444556999999999999988754


Q ss_pred             CCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          290 KPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       290 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      . |...+..+...+.+.+++++|.+.|+...+.  .|+..++..+..++.+.|+
T Consensus       326 ~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~  376 (398)
T PRK10747        326 D-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHK  376 (398)
T ss_pred             C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCC
Confidence            3 6677888999999999999999999999985  6999999999999988886

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.73  E-value=8.7e-14  Score=125.25  Aligned_cols=159  Identities=11%  Similarity=0.061  Sum_probs=80.2

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      -+.+..++|+++.|+..|+++.+..+           .+......++..+...|+.++|+..+++....  .+.......
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL~~~P-----------~~~~av~dll~l~~~~G~~~~A~~~~eka~~p--~n~~~~~ll  106 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEESKAGP-----------LQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS--MNISSRGLA  106 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhhCc-----------cchhhHHHHHHHHHHcCCcHHHHHHHHHhccC--CCCCHHHHH
Confidence            34455566666666666666533221           12111115555555666666666666665421  122222333


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .+...+...|++++|+++|+++.+.. +.+...+..++..+...++.++|+..++++....+ +...+..++..+...++
T Consensus       107 alA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp-~~~~~l~layL~~~~~~  184 (822)
T PRK14574        107 SAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDP-TVQNYMTLSYLNRATDR  184 (822)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCc-chHHHHHHHHHHHhcch
Confidence            33445556666666666666666654 44455555555666666666666666666654432 22223222222322334


Q ss_pred             hhHHHHHHHHHhhC
Q 038490          168 LEDAWKVFDEMVKR  181 (344)
Q Consensus       168 ~~~a~~~~~~~~~~  181 (344)
                      ..+|++.++++.+.
T Consensus       185 ~~~AL~~~ekll~~  198 (822)
T PRK14574        185 NYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHHHHHh
Confidence            43455555555554

>TIGR00540 hemY_coli hemY protein

Probab=99.73  E-value=6.3e-14  Score=118.90  Aligned_cols=282  Identities=9%  Similarity=-0.008  Sum_probs=206.5

Q ss_pred             HhcCCchHHHHHHHHhhhcCCCCCchh-HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490           58 GRAKMFDEMQQILHQLKHDTRIVPKEI-IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDR  136 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  136 (344)
                      ...|+++.|.+.+.+..+.   .|+.. .+-....+..+.|+.+.|.+.+.+..+....+...+.......+...|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~---~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH---AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHH
Confidence            4569999999999887664   35543 3444567788899999999999998875422223444556888899999999


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHH---HhhchHHHHHHHHHHH
Q 038490          137 MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGL---CLELRVDEALKLKEDI  213 (344)
Q Consensus       137 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~  213 (344)
                      |...++.+.+..|.+......+...+...|++++|.+.+..+.+.+..++......-..++   ...+..+++...+..+
T Consensus       172 Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       172 ARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999999988888899999999999999999999999999987543332212112222   3333444444455555


Q ss_pred             HHhcC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHHcCCcCcHHHHHHHHHHcCCC
Q 038490          214 MRVYN--VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIY-SSLISALFKAGRKNEFPAILKEMKERGCK  290 (344)
Q Consensus       214 ~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  290 (344)
                      .+...  .+.+...+..+...+...|+.++|.+++++..+..++.....+ ..........++.+.+.+.++...+....
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~  331 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD  331 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence            54321  1247888999999999999999999999999997544221111 11222223456777888888888776322


Q ss_pred             CCh--hhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          291 PNS--VTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       291 p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                       |.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+
T Consensus       332 -~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~  385 (409)
T TIGR00540       332 -KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGD  385 (409)
T ss_pred             -ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCC
Confidence             44  55678899999999999999999965554457999999999999998886

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

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

Probab=99.72  E-value=1.1e-13  Score=106.43  Aligned_cols=274  Identities=15%  Similarity=0.087  Sum_probs=212.9

Q ss_pred             HhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC-C--HHHHHHHHHHHHhcCCh
Q 038490           58 GRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQM-T--VKFFNTLLNPKLTCGKL  134 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~~~~l~~~~~~~~~~  134 (344)
                      .-.++.++|.++|-+|.+.  -+.+..+.-+|.+.|.+.|.++.|+++.+.+.++.--+ +  ......|.+-|...|-+
T Consensus        46 LLs~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             HhhcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhh
Confidence            3457899999999999884  24455677789999999999999999999998742111 1  23455677788899999


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH----hhHHHHHHHHHhhchHHHHHHHH
Q 038490          135 DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL----VTFGTLIYGLCLELRVDEALKLK  210 (344)
Q Consensus       135 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~  210 (344)
                      |.|+.+|..+.+.+..-..+...|+..|-...+|++|+++-+++.+.+..+..    ..|.-+...+....+.+.|...+
T Consensus       124 DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         124 DRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             hHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            99999999999877777788899999999999999999999999887554432    23445555566678999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCC
Q 038490          211 EDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCK  290 (344)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  290 (344)
                      .+.++..  +..+..-..+.+.....|+++.|.+.++.+.+.++..-..+...|..+|...|+.++....+.++.+..  
T Consensus       204 ~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--  279 (389)
T COG2956         204 KKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--  279 (389)
T ss_pred             HHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--
Confidence            9988763  344445556677888999999999999999999877778889999999999999999999999998864  


Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHh
Q 038490          291 PNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLC  339 (344)
Q Consensus       291 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~  339 (344)
                      +....-..+...-....-.+.|..++.+-..+  +|+...+..|+..-.
T Consensus       280 ~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l  326 (389)
T COG2956         280 TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL  326 (389)
T ss_pred             CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh
Confidence            34444444555444444556666665555543  589999988887544

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

Probab=99.71  E-value=7.3e-15  Score=123.03  Aligned_cols=285  Identities=13%  Similarity=0.054  Sum_probs=206.9

Q ss_pred             CCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC-CchhHHHHHHHHHH
Q 038490           16 KDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV-PKEIIFCNVIGFYG   94 (344)
Q Consensus        16 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~   94 (344)
                      -+.++|+..|..+ +.          .......+...+..+|...+++++|.++|+.+.+..... -+..+|.+.+=   
T Consensus       333 y~~~~A~~~~~kl-p~----------h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LW---  398 (638)
T KOG1126|consen  333 YNCREALNLFEKL-PS----------HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLW---  398 (638)
T ss_pred             HHHHHHHHHHHhh-HH----------hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHH---
Confidence            3567788888774 22          122344666777888888888888888888887653222 23455555442   


Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      ...+.-+---+-+.+.+.. +-.+.+|..+.++|.-+++.+.|++.|++..+.++....+|+.+..-+....++|.|+..
T Consensus       399 HLq~~v~Ls~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~  477 (638)
T KOG1126|consen  399 HLQDEVALSYLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKS  477 (638)
T ss_pred             HHHhhHHHHHHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHH
Confidence            2222222223334445444 566788999999999999999999999999888877888888888888888889999999


Q ss_pred             HHHHhhCCCCcCHhhHHH---HHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          175 FDEMVKRRLQPTLVTFGT---LIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      |+..+..    |...|++   +...|.+.++++.|+-.|+.+.+-.  +.+.+....+...+-+.|+.++|++++++...
T Consensus       478 fr~Al~~----~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN--P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~  551 (638)
T KOG1126|consen  478 FRKALGV----DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN--PSNSVILCHIGRIQHQLKRKDKALQLYEKAIH  551 (638)
T ss_pred             HHhhhcC----CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC--ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHh
Confidence            9887644    5555554   4567888899999998888876532  34566667777778888999999999999888


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCC
Q 038490          252 DKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       252 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  323 (344)
                      .+.+ |+..--.-+..+...++.++|+..++++++.-++ +...|..+...|.+.|+.+.|+.-|.-+.+..
T Consensus       552 ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  552 LDPK-NPLCKYHRASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             cCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            7766 6666556677778888899999999998886322 55667777788889999999988888877653

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

Probab=99.69  E-value=1.7e-14  Score=120.95  Aligned_cols=270  Identities=12%  Similarity=0.035  Sum_probs=211.4

Q ss_pred             CCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCChHHHH
Q 038490           61 KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFN--VQMTVKFFNTLLNPKLTCGKLDRMK  138 (344)
Q Consensus        61 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  138 (344)
                      -+..+|...|..+...  +.-+..+...+.++|...+++++|+++|+.+.+..  ..-+..+|.+.+--+-+    +-++
T Consensus       333 y~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~L  406 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVAL  406 (638)
T ss_pred             HHHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHH
Confidence            4678899999996553  34445677789999999999999999999998764  12256677777653322    1222


Q ss_pred             H-HHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhc
Q 038490          139 E-LFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVY  217 (344)
Q Consensus       139 ~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  217 (344)
                      . +-+.+.+..+..+.+|-++..+|.-+++.+.|++.|++..+.+.. ...+|+.+..-+.....+|.|...|+..+...
T Consensus       407 s~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  407 SYLAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence            2 334555666678899999999999999999999999999887322 77889988888999999999999999866321


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHH
Q 038490          218 NVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYN  297 (344)
Q Consensus       218 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  297 (344)
                        +-+-..|..+.-.|.+.++++.|+-.|+...+-++. +.+....+...+.+.|+.++|++++++......+ |+..--
T Consensus       486 --~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  486 --PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             --chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence              122334555677889999999999999999998766 8888888999999999999999999999887655 555555


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHhhcCC
Q 038490          298 ALISGFCKEEDFEAAFTILDEMGDKGCKA-NPISYNVILGGLCKDGK  343 (344)
Q Consensus       298 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~  343 (344)
                      .-+..+...++.++|+..++++++.  .| +...+..+.+.|.+.|+
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~  606 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGN  606 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHcc
Confidence            5667788899999999999999984  55 45567777778877765

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

Probab=99.66  E-value=1.3e-12  Score=103.49  Aligned_cols=285  Identities=14%  Similarity=0.068  Sum_probs=181.5

Q ss_pred             cCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHH
Q 038490           15 QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYG   94 (344)
Q Consensus        15 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~   94 (344)
                      .|+|.+|.++..+-....+           .....|..-+.+..+.|+.+.+-+++.+.-+.. -.++....-+..+...
T Consensus        97 eG~~~qAEkl~~rnae~~e-----------~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~-~~~~l~v~ltrarlll  164 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGE-----------QPVLAYLLAAEAAQQRGDEDRANRYLAEAAELA-GDDTLAVELTRARLLL  164 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCc-----------chHHHHHHHHHHHHhcccHHHHHHHHHHHhccC-CCchHHHHHHHHHHHH
Confidence            5777777777766433221           134455555666677777777777777766531 1234445555566667


Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCC--------cccHHHHHHHHHhhC
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPD--------ACSYNILIHGCVVSR  166 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------~~~~~~l~~~~~~~~  166 (344)
                      ..|+.+.|..-++.+.+.+ +..+.+.....++|.+.|++.....++..+.+.+..+        ..+|..+++-....+
T Consensus       165 ~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~  243 (400)
T COG3071         165 NRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDN  243 (400)
T ss_pred             hCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccc
Confidence            7777777777777777766 5566677777777777777777777777776665522        234555555555555


Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                      ..+.-...+++.... .+.++..-..++.-+.+.|+.++|.++..+.++. +..|.   ...+ -.+.+.++.+.-.+..
T Consensus       244 ~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L~~~-~~~l~~~d~~~l~k~~  317 (400)
T COG3071         244 GSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---LCRL-IPRLRPGDPEPLIKAA  317 (400)
T ss_pred             cchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---HHHH-HhhcCCCCchHHHHHH
Confidence            555555566555443 3334555556666677777777777777776665 23333   1111 1334566666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          247 EEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       247 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +.-.+..+. ++..+..|...|.+.+.+.+|...|+...+.  .|+..+|+.+..++.+.|+..+|.+..++...
T Consensus       318 e~~l~~h~~-~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         318 EKWLKQHPE-DPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHhCCC-ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            665554333 5567777778888888888888888866654  57778888888888888888888877777664

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.65  E-value=1.2e-12  Score=104.61  Aligned_cols=288  Identities=16%  Similarity=0.190  Sum_probs=203.3

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNT  123 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  123 (344)
                      +.+..+|..+|.++++--..++|.+++++..... .+.+..++|.+|.+-+-.    ...+++.+|....+.||..|+|+
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k-~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAK-GKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhh-heeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHH
Confidence            3467889999999999999999999999988763 577889999988764432    23788899999989999999999


Q ss_pred             HHHHHHhcCChHHH----HHHHHHHhccCC-CCcccHHHHHHHHHhhCChhH-HHHHHHHHhhC----CCCc----CHhh
Q 038490          124 LLNPKLTCGKLDRM----KELFQIMEKYVS-PDACSYNILIHGCVVSRRLED-AWKVFDEMVKR----RLQP----TLVT  189 (344)
Q Consensus       124 l~~~~~~~~~~~~a----~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~~----~~~~  189 (344)
                      ++.+..+.|+++.|    .+++.+|++.|. |...+|..+|..+.+.++..+ |..++.++...    ..+|    |...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            99999999987654    567788888888 999999999999988888744 55555555432    2222    4456


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhcC---CCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVYN---VKPD---GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSS  263 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  263 (344)
                      |...|..|.+..+.+-|.++..-+....+   +.|+   ...|..+....++....+.-...|+.|.-.-.-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            67778888888888777776654321111   2222   23455666666777777777777887777666677777777


Q ss_pred             HHHHHHHcCCcCcHHHHHHHHHHcC-------------------CCCC--------------------------------
Q 038490          264 LISALFKAGRKNEFPAILKEMKERG-------------------CKPN--------------------------------  292 (344)
Q Consensus       264 l~~~~~~~g~~~~a~~~~~~~~~~~-------------------~~p~--------------------------------  292 (344)
                      ++++....|.++-.-+++..++..|                   +.|+                                
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~  518 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ  518 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc
Confidence            7777777777776666666665544                   1121                                


Q ss_pred             ---hhhHHHHHHHHhccCCHHHHHHHHHHHhhC-CCCCChhhHHHHHH
Q 038490          293 ---SVTYNALISGFCKEEDFEAAFTILDEMGDK-GCKANPISYNVILG  336 (344)
Q Consensus       293 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~ll~  336 (344)
                         ....+...-.+.+.|..++|.+++..+.+. +--|-....++|+.
T Consensus       519 ~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~E  566 (625)
T KOG4422|consen  519 DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAE  566 (625)
T ss_pred             cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHH
Confidence               112355555667889999999999888543 33344445554443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.65  E-value=9.5e-13  Score=105.20  Aligned_cols=307  Identities=14%  Similarity=0.164  Sum_probs=218.1

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP   81 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (344)
                      |.|++.++..+++--+.++|..++++.....          .+.+..++|.+|.+-.-..    -.+++.+|... .+.|
T Consensus       207 ~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k----------~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisq-km~P  271 (625)
T KOG4422|consen  207 DETVSIMIAGLCKFSSLERARELYKEHRAAK----------GKVYREAFNGLIGASSYSV----GKKLVAEMISQ-KMTP  271 (625)
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHHHhh----------heeeHHhhhhhhhHHHhhc----cHHHHHHHHHh-hcCC
Confidence            6788889999999999999999998864332          4558889999987754333    27889999887 5899


Q ss_pred             chhHHHHHHHHHHhcccHHH----HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHhcc---------
Q 038490           82 KEIIFCNVIGFYGRARLLER----ALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDR-MKELFQIMEKY---------  147 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~---------  147 (344)
                      |..|+|+++++.++.|+++.    |.+++.+|.+.|+.|...+|..+|..+.+.++..+ +..++.++...         
T Consensus       272 nl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~  351 (625)
T KOG4422|consen  272 NLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPI  351 (625)
T ss_pred             chHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCC
Confidence            99999999999999998764    57788889999999999999999999998887644 44455444322         


Q ss_pred             CCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC----CCcC---HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCC
Q 038490          148 VSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR----LQPT---LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVK  220 (344)
Q Consensus       148 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  220 (344)
                      .+.+...|...+..|.+..+.+.|.++..-+....    +.|+   ..-|..+....|.....+.-...|..+... -+-
T Consensus       352 ~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~-~y~  430 (625)
T KOG4422|consen  352 TPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPS-AYF  430 (625)
T ss_pred             CCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-eec
Confidence            11344556777888888888888888776554321    2222   233556666777777778877777776543 445


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----------------------------------------------
Q 038490          221 PDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI----------------------------------------------  254 (344)
Q Consensus       221 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------------------------------------  254 (344)
                      |+..+...++++..-.|.++-.-+++..+...|.                                              
T Consensus       431 p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~  510 (625)
T KOG4422|consen  431 PHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYES  510 (625)
T ss_pred             CCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHh
Confidence            6666666666666666655555555444433221                                              


Q ss_pred             --------CCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC-CCCChhhHH---HHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          255 --------EMDAGIYSSLISALFKAGRKNEFPAILKEMKERG-CKPNSVTYN---ALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       255 --------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                              +......+.++-.+.+.|+.++|.+++.-+.+.+ --|-....|   .++..-.+.++...|...++-|...
T Consensus       511 ~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~  590 (625)
T KOG4422|consen  511 QPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAF  590 (625)
T ss_pred             hHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence                    1233345667777889999999999999996553 233334444   5566677888999999999988765


Q ss_pred             CC
Q 038490          323 GC  324 (344)
Q Consensus       323 ~~  324 (344)
                      +.
T Consensus       591 n~  592 (625)
T KOG4422|consen  591 NL  592 (625)
T ss_pred             Cc
Confidence            43

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

Probab=99.65  E-value=3.1e-12  Score=101.37  Aligned_cols=273  Identities=10%  Similarity=0.064  Sum_probs=223.1

Q ss_pred             cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490           60 AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKE  139 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  139 (344)
                      .|+|.+|+++..+-.+..  +-....|..-+.+.-+.|+.+.+-+++.+..+..-.++....-+..+.....|+.+.|..
T Consensus        97 eG~~~qAEkl~~rnae~~--e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHG--EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC--cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            599999999999977652  222345666678888999999999999999886336677788888899999999999999


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH-------hhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          140 LFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL-------VTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      -++++....+.++.......++|.+.|++.....++..+.+.|.--++       .+|..+++-....+..+.-...+++
T Consensus       175 ~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         175 NVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            999999988889999999999999999999999999999999876554       4566777766666666666667776


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC
Q 038490          213 IMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN  292 (344)
Q Consensus       213 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  292 (344)
                      .-+  ..+.++..-..++.-+.+.|+.++|.++.++..+.+.+|+    -...-.+.+.++.+.-++..+.-.+.... +
T Consensus       255 ~pr--~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~-~  327 (400)
T COG3071         255 QPR--KLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPE-D  327 (400)
T ss_pred             ccH--HhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCC-C
Confidence            544  3456677788889999999999999999999999877665    22234466778888888888776665332 5


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          293 SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       293 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      +..+.+|...|.+.+.|.+|...|+...+  ..|+..+|..+-.++.+.|+
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~  376 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGE  376 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCC
Confidence            67889999999999999999999998777  47999999999999999886

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

Probab=99.63  E-value=1.4e-12  Score=113.03  Aligned_cols=319  Identities=14%  Similarity=0.056  Sum_probs=191.7

Q ss_pred             hhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHH
Q 038490           10 CLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNV   89 (344)
Q Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l   89 (344)
                      ..+.-.|+.++|..++.++..+           .+.+...|..|...|-+.|+.+++...+-..-..  .+-|...|..+
T Consensus       147 N~lfarg~~eeA~~i~~EvIkq-----------dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL--~p~d~e~W~~l  213 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQ-----------DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL--NPKDYELWKRL  213 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh-----------CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCChHHHHHH
Confidence            3333447777777777776433           3336677777777777777777777665544432  24455667777


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCc-ccH----HHHHHHHHh
Q 038490           90 IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA-CSY----NILIHGCVV  164 (344)
Q Consensus        90 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~----~~l~~~~~~  164 (344)
                      .....+.|.++.|.-.|.+.++.. +++...+-.-...|-+.|+...|...|.++.+..+|.. .-+    ...+..+..
T Consensus       214 adls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~  292 (895)
T KOG2076|consen  214 ADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFIT  292 (895)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHH
Confidence            777777777777777777777665 55555555556666677777777777666665544221 111    122334444


Q ss_pred             hCChhHHHHHHHHHhhC-CCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHH-----------------------------
Q 038490          165 SRRLEDAWKVFDEMVKR-RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIM-----------------------------  214 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----------------------------  214 (344)
                      .++.+.|.+.++..... +-..+...++.++..+.+...++.+........                             
T Consensus       293 ~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~  372 (895)
T KOG2076|consen  293 HNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGK  372 (895)
T ss_pred             hhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCC
Confidence            45445555555554431 112223333344444444444444433332221                             


Q ss_pred             -------------------------------HhcC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 038490          215 -------------------------------RVYN--VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIY  261 (344)
Q Consensus       215 -------------------------------~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  261 (344)
                                                     ....  +.-+...|..+..++...|++.+|..++..+......-+...|
T Consensus       373 ~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw  452 (895)
T KOG2076|consen  373 ELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVW  452 (895)
T ss_pred             CCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhh
Confidence                                           1112  2224556777788888888888888888888876554467788


Q ss_pred             HHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh--------hCCCCCChhhHHH
Q 038490          262 SSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG--------DKGCKANPISYNV  333 (344)
Q Consensus       262 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~~~p~~~~~~~  333 (344)
                      -.+..+|...|..++|.+.|+......+. +...--.|...+.+.|+.++|.+.++.+.        ..++.|+....-.
T Consensus       453 ~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~  531 (895)
T KOG2076|consen  453 YKLARCYMELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAH  531 (895)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHH
Confidence            88888888888888888888888776322 34444556667778888888888888854        2234455544444


Q ss_pred             HHHHHhhcCC
Q 038490          334 ILGGLCKDGK  343 (344)
Q Consensus       334 ll~~~~~~g~  343 (344)
                      ....+.+.|+
T Consensus       532 r~d~l~~~gk  541 (895)
T KOG2076|consen  532 RCDILFQVGK  541 (895)
T ss_pred             HHHHHHHhhh
Confidence            4444444443

>PRK12370 invasion protein regulator; Provisional

Probab=99.63  E-value=2.2e-12  Score=113.66  Aligned_cols=266  Identities=11%  Similarity=0.055  Sum_probs=188.0

Q ss_pred             chhhHHHHHHHHHh-----cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHH---------hcccHHHHHHHHHHHHh
Q 038490           46 NLLHYDLIITKLGR-----AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYG---------RARLLERALQMFDEMSS  111 (344)
Q Consensus        46 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~  111 (344)
                      +..+|...+.+...     .+.+++|.+.|++..+..  +.+...+..+..++.         ..+++++|...+++..+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld--P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS--PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            55556566655422     234678999999988742  233455655555443         23458899999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHH
Q 038490          112 FNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFG  191 (344)
Q Consensus       112 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  191 (344)
                      .+ +.+...+..+...+...|++++|...+++..+..+.+...+..+...+...|++++|...+++..+.+.. +...+.
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            86 6678888888888999999999999999999888878888888999999999999999999999887433 222333


Q ss_pred             HHHHHHHhhchHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 038490          192 TLIYGLCLELRVDEALKLKEDIMRVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFK  270 (344)
Q Consensus       192 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  270 (344)
                      .++..+...|++++|...++++++..  +| +...+..+..++...|+.++|...+.++...... +....+.+...|..
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~--~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~-~~~~~~~l~~~~~~  487 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQH--LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEIT-GLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhc--cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccch-hHHHHHHHHHHHhc
Confidence            34445667889999999998876542  34 4555777778888999999999999887765322 44455666667777


Q ss_pred             cCCcCcHHHHHHHHHHcC-CCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCC
Q 038490          271 AGRKNEFPAILKEMKERG-CKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       271 ~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  323 (344)
                      .|+  +|...++.+.+.. ..|....+  +-..+.-.|+.+.+..+ +++.+.|
T Consensus       488 ~g~--~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NSE--RALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cHH--HHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            774  7888777765531 12222222  44455566777766666 7777653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.62  E-value=7.6e-13  Score=104.08  Aligned_cols=200  Identities=12%  Similarity=0.015  Sum_probs=99.7

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...+++.....+.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Confidence            3445555566666666666666666665543 334455555555566666666666666555554444444555555555


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      ...|++++|.+.+++.....                                   ........+..+..++...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~-----------------------------------~~~~~~~~~~~l~~~~~~~g~~~~A  154 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDP-----------------------------------LYPQPARSLENAGLCALKAGDFDKA  154 (234)
T ss_pred             HHcccHHHHHHHHHHHHhcc-----------------------------------ccccchHHHHHHHHHHHHcCCHHHH
Confidence            55555555555555554431                                   1111222333344444445555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      ...+++..+.... +...+..+...+...|++++|...+++.... .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       155 ~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       155 EKYLTRALQIDPQ-RPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            5555554443222 3344444455555555555555555554443 12233334444444445555555555544443

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.

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

Probab=99.62  E-value=2.3e-12  Score=103.90  Aligned_cols=289  Identities=13%  Similarity=0.058  Sum_probs=199.4

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      .+.++.+.|....|.+.|.....           ..|..-.+|..|......   .+    +...+..  |.+.+.....
T Consensus       170 ~Gvv~k~~~~~s~A~~sfv~~v~-----------~~P~~W~AWleL~~lit~---~e----~~~~l~~--~l~~~~h~M~  229 (559)
T KOG1155|consen  170 YGVVLKELGLLSLAIDSFVEVVN-----------RYPWFWSAWLELSELITD---IE----ILSILVV--GLPSDMHWMK  229 (559)
T ss_pred             HHHHHHhhchHHHHHHHHHHHHh-----------cCCcchHHHHHHHHhhch---HH----HHHHHHh--cCcccchHHH
Confidence            35566778888999999987632           223344445444443321   11    1111111  1111111111


Q ss_pred             --HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC----------------
Q 038490           88 --NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS----------------  149 (344)
Q Consensus        88 --~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------  149 (344)
                        -+..++....+.+++.+-.+.+...|++-+...-+....+.-...|+++|+.+|+++.+..|                
T Consensus       230 ~~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~  309 (559)
T KOG1155|consen  230 KFFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVK  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHH
Confidence              13344444455555555555555555444444333344444445555555555555555443                


Q ss_pred             ------------------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHH
Q 038490          150 ------------------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKE  211 (344)
Q Consensus       150 ------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (344)
                                        -.+.|+-++.+.|+-.++.++|...|++..+.+.. ....|+.+..-|....+...|+.-++
T Consensus       310 ~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  310 NDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             hhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHH
Confidence                              22334445556677788899999999999987533 56778888899999999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC
Q 038490          212 DIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKP  291 (344)
Q Consensus       212 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  291 (344)
                      ++++-.  +.|-..|-.+.++|.-.+...=|+-.|++.....+. |...|.+|..+|.+.++.++|+..|.+....|-. 
T Consensus       389 rAvdi~--p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-  464 (559)
T KOG1155|consen  389 RAVDIN--PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-  464 (559)
T ss_pred             HHHhcC--chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-
Confidence            987643  667889999999999999999999999999988655 8999999999999999999999999999887643 


Q ss_pred             ChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          292 NSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       292 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +...+..|...|-+.++..+|...|++.++
T Consensus       465 e~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  465 EGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             chHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            567899999999999999999999988765

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

Probab=99.62  E-value=4.2e-13  Score=117.14  Aligned_cols=231  Identities=14%  Similarity=0.085  Sum_probs=150.9

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccC----CCCcc------cHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          112 FNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV----SPDAC------SYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       112 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      .+-++.+...|.+...+...|+++.|...|.......    .++..      +-..+.+..-..++++.|.+.|..+.+.
T Consensus       446 ~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke  525 (1018)
T KOG2002|consen  446 KGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE  525 (1018)
T ss_pred             cCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            3445677888888888888888888888888776541    12221      1222334444444555555555554443


Q ss_pred             C---------------------------------CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490          182 R---------------------------------LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFAS  228 (344)
Q Consensus       182 ~---------------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (344)
                      .                                 ...++..++.+...+.+...+..|..-|..+.+.....+|..+.-+
T Consensus       526 hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Yslia  605 (1018)
T KOG2002|consen  526 HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIA  605 (1018)
T ss_pred             CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHH
Confidence            1                                 1112233333333444555555555545444444333455555555


Q ss_pred             HHHHHHh------------cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhH
Q 038490          229 LIKGLCA------------VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTY  296 (344)
Q Consensus       229 l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  296 (344)
                      |...|..            .+..++|+++|.++++..+. |...-|-+.-+++..|++.+|..+|...++.... ...+|
T Consensus       606 LGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~  683 (1018)
T KOG2002|consen  606 LGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVW  683 (1018)
T ss_pred             hhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCcee
Confidence            5554432            23467888899988888765 8888888888899999999999999999887542 56778


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhC-CCCCChhhHHHHHHHHhhcCCC
Q 038490          297 NALISGFCKEEDFEAAFTILDEMGDK-GCKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       297 ~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~  344 (344)
                      -.+.++|..+|++..|+++|+...+. .-.-+......|-+++-+.|++
T Consensus       684 lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~  732 (1018)
T KOG2002|consen  684 LNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKL  732 (1018)
T ss_pred             eeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhH
Confidence            88999999999999999999987753 3344777888888888887753

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

Probab=99.61  E-value=3.6e-12  Score=102.84  Aligned_cols=288  Identities=12%  Similarity=0.062  Sum_probs=209.7

Q ss_pred             CCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC-CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHH
Q 038490           43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV-PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFF  121 (344)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  121 (344)
                      ++.+...-+....+.-...++++|+.+|+++.+..... .|..+|..++-.-.......   -+-......+ +-.+.|+
T Consensus       258 f~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs---~LA~~v~~id-KyR~ETC  333 (559)
T KOG1155|consen  258 FPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS---YLAQNVSNID-KYRPETC  333 (559)
T ss_pred             CCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH---HHHHHHHHhc-cCCccce
Confidence            33344444444555556667777777777776653222 23456665553322211111   1111111222 3344566


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc
Q 038490          122 NTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL  201 (344)
Q Consensus       122 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  201 (344)
                      ..+.+-|+-.++.++|...|++..+.++.....|+.+..-|....+...|.+-++...+-+ +.|-..|-.+.++|.-.+
T Consensus       334 CiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~  412 (559)
T KOG1155|consen  334 CIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMK  412 (559)
T ss_pred             eeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhc
Confidence            6777778888999999999999999988889999999999999999999999999999874 448888999999999999


Q ss_pred             hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHH
Q 038490          202 RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL  281 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  281 (344)
                      ...=|+-.|++...-.  +.|...|.+|.++|.+.++.++|++.|......|-. +...+..|...|-+.++.++|...|
T Consensus       413 Mh~YaLyYfqkA~~~k--PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~y  489 (559)
T KOG1155|consen  413 MHFYALYYFQKALELK--PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYY  489 (559)
T ss_pred             chHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHH
Confidence            9999999999977542  557899999999999999999999999999988744 7789999999999999999999999


Q ss_pred             HHHHHc----CCC-C-ChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          282 KEMKER----GCK-P-NSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       282 ~~~~~~----~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      ++..+.    |.. | ......-|..-+.+.+++++|..+.....+.  .+...--+.|++.+.+
T Consensus       490 ek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~eeak~LlReir~  552 (559)
T KOG1155|consen  490 EKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECEEAKALLREIRK  552 (559)
T ss_pred             HHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHHHHHHHHHHHHH
Confidence            887653    332 2 1222233556677889999998877766653  4556666677766554

>PRK12370 invasion protein regulator; Provisional

Probab=99.61  E-value=5.2e-13  Score=117.59  Aligned_cols=250  Identities=12%  Similarity=0.017  Sum_probs=182.2

Q ss_pred             CCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHh---------cCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490           16 KDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGR---------AKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus        16 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      ++.++|+.+|++.....           |.+...|..+..++..         .+++++|...+++..+..  +.+...+
T Consensus       275 ~~~~~A~~~~~~Al~ld-----------P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld--P~~~~a~  341 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-----------PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD--HNNPQAL  341 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-----------CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC--CCCHHHH
Confidence            45678999999874432           2356677777665542         244789999999998753  4467778


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      ..+...+...|++++|...|++..+.+ +.+...+..+..++...|++++|...+++..+..+.+...+..++..+...|
T Consensus       342 ~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g  420 (553)
T PRK12370        342 GLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHT  420 (553)
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhcc
Confidence            888888999999999999999999987 6677889999999999999999999999999887755555555566677789


Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                      ++++|...++++.....+-+...+..+..++...|+.++|...+.++...   .|+ ....+.+...|...|  ++|...
T Consensus       421 ~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g--~~a~~~  495 (553)
T PRK12370        421 GIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ---EITGLIAVNLLYAEYCQNS--ERALPT  495 (553)
T ss_pred             CHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc---cchhHHHHHHHHHHHhccH--HHHHHH
Confidence            99999999999876632224455666777888999999999999886543   343 444555666667777  477777


Q ss_pred             HHHHHHCCC-CCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          246 KEEMVRDKI-EMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       246 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ++.+.+..- .+....+  +-..+.-.|+-+.+... +++.+.
T Consensus       496 l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        496 IREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             HHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            777665311 1121222  44455666776666655 777665

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.60  E-value=2.5e-12  Score=101.18  Aligned_cols=201  Identities=11%  Similarity=0.012  Sum_probs=158.5

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTL  124 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  124 (344)
                      .....+..+...+...|++++|.+.+++..+.  .+.+...+..+...+...|++++|.+.+++..+.+ +.+...+..+
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~  105 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEH--DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNY  105 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            34677888999999999999999999999875  24456788889999999999999999999999876 5667788889


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCC--CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVS--PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR  202 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  202 (344)
                      ...+...|++++|...+++......  .....+..+...+...|++++|...+++..... +.+...+..+...+...|+
T Consensus       106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  184 (234)
T TIGR02521       106 GTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQ  184 (234)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCC
Confidence            9999999999999999999876432  234456667778888888888888888887763 2245566677777788888


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          203 VDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      +++|...+++..+.  .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       185 ~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       185 YKDARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            88888888876654  244556666667777777888888877776654

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.

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

Probab=99.60  E-value=9.3e-12  Score=108.13  Aligned_cols=296  Identities=13%  Similarity=0.077  Sum_probs=224.7

Q ss_pred             CCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      ..|........+..+...|++++|.+++.++++.  .+.+...|..|...|-..|+.+++...+-..-..+ +.|...|.
T Consensus       135 l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~  211 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFARGDLEEAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWK  211 (895)
T ss_pred             cCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHH
Confidence            3444555555666666679999999999999986  36678899999999999999999999887776665 66778999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHH----HHHHHHH
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFG----TLIYGLC  198 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~  198 (344)
                      .+.....+.|+++.|.-.|.+..+..|++....---+..|-+.|+...|+.-|.++.....+.|..-+.    .+++.+.
T Consensus       212 ~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~  291 (895)
T KOG2076|consen  212 RLADLSEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFI  291 (895)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999988887777778899999999999999999999874433333333    3456677


Q ss_pred             hhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH---------------------------
Q 038490          199 LELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR---------------------------  251 (344)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------------------  251 (344)
                      ..++.+.|.+.+.......+-.-+...++.++..+.+...++.+......+..                           
T Consensus       292 ~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~  371 (895)
T KOG2076|consen  292 THNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVG  371 (895)
T ss_pred             HhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCC
Confidence            77777999999888776544444555666777777777666666655554433                           


Q ss_pred             ----------------------------------CC--CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhh
Q 038490          252 ----------------------------------DK--IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVT  295 (344)
Q Consensus       252 ----------------------------------~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  295 (344)
                                                        ..  +.-+...|.-+..+|...|.+.+|+.+|..+......-+...
T Consensus       372 ~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~v  451 (895)
T KOG2076|consen  372 KELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFV  451 (895)
T ss_pred             CCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhh
Confidence                                              11  111344566788889999999999999999988755556778


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC-hhhHHHHHHHHhhcCC
Q 038490          296 YNALISGFCKEEDFEAAFTILDEMGDKGCKAN-PISYNVILGGLCKDGK  343 (344)
Q Consensus       296 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~  343 (344)
                      |..+..+|...|..++|.+.|++....  .|+ ...-.+|-..+-+.|+
T Consensus       452 w~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~  498 (895)
T KOG2076|consen  452 WYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGN  498 (895)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCC
Confidence            888999999999999999999998864  343 3334444444444443

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

Probab=99.57  E-value=7.5e-13  Score=102.16  Aligned_cols=228  Identities=12%  Similarity=0.050  Sum_probs=121.5

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .+.++|.+.|.+.+|.+-++..+..  .|-+.+|..|...|.+..+...|+.++.+..+..|.+.....-+.+.+-..++
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHh
Confidence            4555555666666665555555543  34445555555556555556666655555555444444444445555555555


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKE  247 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  247 (344)
                      .++|.++++...+.. +.++.....+...|.-.++.+-|+.+|+++++..  ..++..|+.+.-+|.-.++++-++.-|.
T Consensus       306 ~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG--~~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  306 QEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMG--AQSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhc--CCChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            666666665555442 2244444445555555555666666666555442  2344455555555555555555555555


Q ss_pred             HHHHCCCCC--CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          248 EMVRDKIEM--DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       248 ~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +....--.|  -..+|-.+....+..||+.-|.+.|+-....+.. +...+|.|.-.-.+.|++++|..++....+
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            555432222  2344555555555556666666666555554322 445555555555556666666666655544

>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=99.56  E-value=3.1e-11  Score=103.27  Aligned_cols=269  Identities=12%  Similarity=0.084  Sum_probs=198.1

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK  128 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  128 (344)
                      ........+...|++++|++.++.-...  +......+......+.+.|+.++|..+|..+++.+ |.+..-|..+..+.
T Consensus         6 ~lLY~~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~   82 (517)
T PF12569_consen    6 LLLYKNSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEAL   82 (517)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            3444567788999999999999886653  45556677788999999999999999999999997 66666677777766


Q ss_pred             Hhc-----CChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh-hHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch
Q 038490          129 LTC-----GKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL-EDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR  202 (344)
Q Consensus       129 ~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  202 (344)
                      ...     .+.+....+++.+....+ ...+...+.-.+.....+ ..+..++..+...|+++   +|+.+-..|....+
T Consensus        83 g~~~~~~~~~~~~~~~~y~~l~~~yp-~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K  158 (517)
T PF12569_consen   83 GLQLQLSDEDVEKLLELYDELAEKYP-RSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEK  158 (517)
T ss_pred             hhhcccccccHHHHHHHHHHHHHhCc-cccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhH
Confidence            332     257778888988876653 333333332222222233 35666777788888653   45556556666666


Q ss_pred             HHHHHHHHHHHHHhc-------------CCCCCHH--HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038490          203 VDEALKLKEDIMRVY-------------NVKPDGQ--VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISA  267 (344)
Q Consensus       203 ~~~a~~~~~~~~~~~-------------~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  267 (344)
                      .+-...++.......             .-+|+..  ++..+.+.|...|++++|++++++.++..+. .+..|..-.+.
T Consensus       159 ~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~Kari  237 (517)
T PF12569_consen  159 AAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARI  237 (517)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHH
Confidence            666666666544321             1134443  4466678888999999999999999998544 57888999999


Q ss_pred             HHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCC
Q 038490          268 LFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKA  326 (344)
Q Consensus       268 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  326 (344)
                      +-+.|++.+|.+.++..+..... |...-+-.+..+.++|+.++|.+++....+.+..|
T Consensus       238 lKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  238 LKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence            99999999999999999998665 77777778888999999999999999998776544

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 [], [].

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

Probab=99.54  E-value=1.4e-10  Score=97.79  Aligned_cols=317  Identities=13%  Similarity=0.060  Sum_probs=243.5

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      .-++.+.+.+.++-|..+|...           +.-++.+...|...+..--..|..+....+|++....  ++-....|
T Consensus       521 ~da~~~~k~~~~~carAVya~a-----------lqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lw  587 (913)
T KOG0495|consen  521 DDAQSCEKRPAIECARAVYAHA-----------LQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILW  587 (913)
T ss_pred             hhHHHHHhcchHHHHHHHHHHH-----------HhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHH
Confidence            3455667777888888888776           4446668888888888778888889999999988874  45555666


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      ....+.+...|++..|..++....+.. +-+..+|-..+..-....+++.|..+|.+..... ++...|.--+..-.-.+
T Consensus       588 lM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~s-gTeRv~mKs~~~er~ld  665 (913)
T KOG0495|consen  588 LMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSIS-GTERVWMKSANLERYLD  665 (913)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccC-CcchhhHHHhHHHHHhh
Confidence            667777888899999999999888876 5577888888888889999999999998887643 66666766666666778


Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                      ..++|.+++++..+. .+--...|..+.+.+-+.++.+.|...|..-.+  .++...-.|-.+...--+.|++-.|..++
T Consensus       666 ~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~il  742 (913)
T KOG0495|consen  666 NVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSIL  742 (913)
T ss_pred             hHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHH
Confidence            899999999888876 232344566677788888889999888876443  23445667777777778888999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc----C-------------------------CCCChhhHH
Q 038490          247 EEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER----G-------------------------CKPNSVTYN  297 (344)
Q Consensus       247 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~-------------------------~~p~~~~~~  297 (344)
                      ++..-.+++ +...|-..|++-.+.|+.+.|..++.+....    |                         ..-|+...-
T Consensus       743 drarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVll  821 (913)
T KOG0495|consen  743 DRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLL  821 (913)
T ss_pred             HHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHH
Confidence            999888776 8899999999999999999988877665442    1                         123444455


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          298 ALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       298 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      .+...+.....++.|.+.|.+..+.+ +-+-.+|.-+.+-+.++|.
T Consensus       822 aia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~  866 (913)
T KOG0495|consen  822 AIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGT  866 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCC
Confidence            66677778889999999999998753 2255788888888888873

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

Probab=99.54  E-value=8.4e-12  Score=100.77  Aligned_cols=278  Identities=12%  Similarity=0.093  Sum_probs=203.0

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHH--HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNV--IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      .+.+.|+++.|++++.-+.+.. -+.-...-+.|  +.....-.++..|.+.-+.....+ .-+......-.+.....|+
T Consensus       428 ~~lk~~d~~~aieilkv~~~kd-nk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKD-NKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhcc-chhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            4667799999999988887653 12222222222  222223456777877777766554 4444444444445556799


Q ss_pred             hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHH
Q 038490          134 LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDI  213 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (344)
                      +++|...+++.......-......+.-.+-..|++++|++.|-++..- +..+......+...|....+..+|++++.+.
T Consensus       506 ~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            999999999988643322222333334567889999999999887654 2336667777888888889999999998764


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCCh
Q 038490          214 MRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNS  293 (344)
Q Consensus       214 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  293 (344)
                      ..  -++.|+.+.+.|...|-+.|+-..|.+.+-.-.+. ++-+..+...|...|....-+++++..|++..-  ++|+.
T Consensus       585 ~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~  659 (840)
T KOG2003|consen  585 NS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQ  659 (840)
T ss_pred             cc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccH
Confidence            32  45667899999999999999999998877665544 455889999999999999999999999998765  47999


Q ss_pred             hhHHHHHHHH-hccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcC
Q 038490          294 VTYNALISGF-CKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDG  342 (344)
Q Consensus       294 ~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g  342 (344)
                      .-|..++..| .+.|++++|+.+|+..... ++-|..+..-|++.+...|
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhcccc
Confidence            9999888755 4689999999999998865 6678888888888877655

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=3.4e-14  Score=81.52  Aligned_cols=50  Identities=48%  Similarity=1.012  Sum_probs=43.0

Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          291 PNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       291 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.||++|++
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            78888888888888888888888888888888888888888888888875

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

Probab=99.52  E-value=3.9e-11  Score=99.29  Aligned_cols=292  Identities=12%  Similarity=-0.030  Sum_probs=233.0

Q ss_pred             CCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHH
Q 038490           40 LKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVK  119 (344)
Q Consensus        40 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  119 (344)
                      +.+...+......-.+-+...+++.+..++.+.+.+..  +++...+..-|.++...|+..+-.-+=..+.+.- |-...
T Consensus       237 l~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d--pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~  313 (611)
T KOG1173|consen  237 LIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD--PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKAL  313 (611)
T ss_pred             hhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC--CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCc
Confidence            34445577777778888888999999999999998864  6666667777778888898888888878888765 66678


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL  199 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  199 (344)
                      +|-++.--|...|...+|.+.|.+.....+.-...|-.....|+-.|..++|+..+...-+. .+-...-+--+..-|.+
T Consensus       314 sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~  392 (611)
T KOG1173|consen  314 SWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMR  392 (611)
T ss_pred             chhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHH
Confidence            89999988888999999999999998877777788999999999999999999999887654 11111112234456788


Q ss_pred             hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC--CCCHHHHHHHHHHHHHcCC
Q 038490          200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD----KI--EMDAGIYSSLISALFKAGR  273 (344)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~~~~~~~~l~~~~~~~g~  273 (344)
                      .++.+.|.++|.+.+.-  .+.|+...+-+.-.....+.+.+|..+|+..+..    +.  ..-..+++.|..+|.+.+.
T Consensus       393 t~n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~  470 (611)
T KOG1173|consen  393 TNNLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNK  470 (611)
T ss_pred             hccHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhh
Confidence            99999999999887643  2456777777766667788999999999888732    10  1134568899999999999


Q ss_pred             cCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          274 KNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       274 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      +++|+..+++......+ +..++.++.-.|...|+++.|...|.+..-  +.|+..+-..++..+..
T Consensus       471 ~~eAI~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  471 YEEAIDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHH
Confidence            99999999999888654 899999999999999999999999999885  57888888888776544

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

Probab=99.52  E-value=2.5e-11  Score=106.36  Aligned_cols=286  Identities=11%  Similarity=0.036  Sum_probs=221.9

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCC--CCCch------hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTR--IVPKE------IIFCNVIGFYGRARLLERALQMFDEMSSFNVQM  116 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  116 (344)
                      +.....|.+.......|++.+|...|........  ..++.      .+--.+..+.-..++++.|.++|..+.+.. +.
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            4577889999999999999999999998775410  12222      234456777778889999999999999875 44


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC-CCcCHhhHHHHHH
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR-LQPTLVTFGTLIY  195 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~  195 (344)
                      =+..|-.+....-..+...+|...+.........++..+..+...+.+...+..|..-|+...+.- ..+|..+...|..
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            455666666444556888999999999998888888889888889999999999999887776542 2356666555655


Q ss_pred             HHHh------------hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 038490          196 GLCL------------ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSS  263 (344)
Q Consensus       196 ~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  263 (344)
                      .|.+            .+..++|+++|.++++..  +-+...-|.+.-+++..|++.+|..+|.++.+.... ...+|-.
T Consensus       609 ~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d--pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lN  685 (1018)
T KOG2002|consen  609 VYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND--PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLN  685 (1018)
T ss_pred             HHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC--cchhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeee
Confidence            4432            356789999999988754  567777888888999999999999999999987653 6678889


Q ss_pred             HHHHHHHcCCcCcHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHH
Q 038490          264 LISALFKAGRKNEFPAILKEMKER-GCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVI  334 (344)
Q Consensus       264 l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  334 (344)
                      +.++|...|++..|+++|+...+. ...-+....+.|.+++.+.|.+.+|.+.+.........-....+|..
T Consensus       686 lah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a  757 (1018)
T KOG2002|consen  686 LAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLA  757 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHH
Confidence            999999999999999999987654 44447778889999999999999999998888765333233444443

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

Probab=99.51  E-value=3.4e-11  Score=99.59  Aligned_cols=279  Identities=14%  Similarity=0.029  Sum_probs=226.1

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      .++.+-..+++.+.+.+++.+.           ...++....+-.-|.++...|+..+-..+=.++.+.  .|-.+.+|-
T Consensus       250 ~ad~~y~~c~f~~c~kit~~ll-----------e~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~  316 (611)
T KOG1173|consen  250 KADRLYYGCRFKECLKITEELL-----------EKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWF  316 (611)
T ss_pred             HHHHHHHcChHHHHHHHhHHHH-----------hhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchh
Confidence            3455667788999999999883           334556667777778999999999988888888875  466678899


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      ++.-.|...|...+|.+.|.+....+ +.-...|..+...|+-.|+.++|+..+...-+..+.....+--+.--|.+.++
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n  395 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNN  395 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhcc
Confidence            99999989999999999999988665 33456899999999999999999999988877665444445556667888999


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC-C---C-CCHHHHHHHHHHHHhcCChHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN-V---K-PDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~---~-~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      .+.|.+.|.+.... .+.|+...+-+.-.....+.+.+|..+|+..+..-. +   . --.-+++.|..+|.+.+.+++|
T Consensus       396 ~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  396 LKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            99999999998877 355788888887777889999999999998763211 0   1 1234688899999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +..+++.+....+ +..++..+.-.|...|+++.|.+.|.+....  .|+-.+...++..+.
T Consensus       475 I~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~l--~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  475 IDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALAL--KPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHhc--CCccHHHHHHHHHHH
Confidence            9999999998765 9999999999999999999999999998875  677767766666443

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

Probab=99.50  E-value=3.3e-12  Score=110.66  Aligned_cols=241  Identities=17%  Similarity=0.168  Sum_probs=130.8

Q ss_pred             CCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHH
Q 038490           78 RIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNI  157 (344)
Q Consensus        78 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (344)
                      |+.|+..+|..+|.-|+..|+.+.|- +|.-|.-...+.+...++.++.+....++.+.+.          .|...+|..
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------ep~aDtyt~   88 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------EPLADTYTN   88 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------CCchhHHHH
Confidence            45555555555555555555555555 5555554444445555555555555555444333          245555555


Q ss_pred             HHHHHHhhCChhH-----------------------HHHHHHHHh-hCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHH
Q 038490          158 LIHGCVVSRRLED-----------------------AWKVFDEMV-KRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDI  213 (344)
Q Consensus       158 l~~~~~~~~~~~~-----------------------a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (344)
                      |..+|...||+..                       ...++..+. ..+..||..+   .+....-.|-++.+.+++..+
T Consensus        89 Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   89 LLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHHHHHhhC
Confidence            5555555555432                       111111110 0111222222   122223445555655555443


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC
Q 038490          214 MRVYNVKPDGQVFASLIKGLCAVG-ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN  292 (344)
Q Consensus       214 ~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  292 (344)
                      -......|...    +++-+.... .+++-..+.+...+   .|+..+|.+++.+-..+|+++.|..++.+|++.|++.+
T Consensus       166 Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  166 PVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             CcccccchHHH----HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            22111112111    233222222 22222222222222   47888888888888888888888888888888888777


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcC
Q 038490          293 SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDG  342 (344)
Q Consensus       293 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g  342 (344)
                      ..-|..|+-+   .++...+..++.-|.+.|+.|+..|+.-.+..+..+|
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence            7777777655   7777778888888888888888888877777666543

>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=99.50  E-value=8.1e-11  Score=100.74  Aligned_cols=294  Identities=15%  Similarity=0.112  Sum_probs=208.9

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      .....++...|++++|++.++.....           +.............+.+.|+.++|..++..+...+   |+...
T Consensus         8 LY~~~il~e~g~~~~AL~~L~~~~~~-----------I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN---Pdn~~   73 (517)
T PF12569_consen    8 LYKNSILEEAGDYEEALEHLEKNEKQ-----------ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN---PDNYD   73 (517)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhhhhh-----------CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHH
Confidence            34467788899999999999886333           23356667888899999999999999999999863   55555


Q ss_pred             H-HHHHHHHHh-----cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH-HHHHHHHHHhccCCCCcccHHHH
Q 038490           86 F-CNVIGFYGR-----ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLD-RMKELFQIMEKYVSPDACSYNIL  158 (344)
Q Consensus        86 ~-~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~l  158 (344)
                      | ..+..+..-     ..+.+...++|+++...-  |.......+.-.+..-.++. .+...+..+...|.|  .+|+.+
T Consensus        74 Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP--slF~~l  149 (517)
T PF12569_consen   74 YYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP--SLFSNL  149 (517)
T ss_pred             HHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc--hHHHHH
Confidence            4 445555422     235788889999887653  33333333322222222232 344455555555544  457777


Q ss_pred             HHHHHhhCChhHHHHHHHHHhhC----C----------CCcCHh--hHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC
Q 038490          159 IHGCVVSRRLEDAWKVFDEMVKR----R----------LQPTLV--TFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD  222 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  222 (344)
                      -..|......+-..+++......    +          -+|+..  ++..+...|...|++++|+.++++.+...  +..
T Consensus       150 k~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~  227 (517)
T PF12569_consen  150 KPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTL  227 (517)
T ss_pred             HHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCc
Confidence            77777666666666666665432    1          133442  44556677889999999999999988752  334


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhH------
Q 038490          223 GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTY------  296 (344)
Q Consensus       223 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~------  296 (344)
                      +..|..-...+-+.|++.+|.+.++.....+.. |...-+-.+..+.+.|++++|..++...-..+..|-...+      
T Consensus       228 ~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~W  306 (517)
T PF12569_consen  228 VELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMW  306 (517)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHH
Confidence            778888899999999999999999999998766 8888888999999999999999999998776543332222      


Q ss_pred             --HHHHHHHhccCCHHHHHHHHHHHh
Q 038490          297 --NALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       297 --~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                        .....+|.+.|++..|++.|..+.
T Consensus       307 f~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  307 FETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence              344578889999999988776664

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=99.49  E-value=9.1e-11  Score=86.50  Aligned_cols=210  Identities=13%  Similarity=-0.020  Sum_probs=161.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL  199 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  199 (344)
                      +...|.-.|...|+...|..-+++..+..+.+..+|..+...|.+.|+.+.|.+.|++....... +....|....-+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHh
Confidence            44556667888888888888888888888778888888888888888888888888888776322 45556666667788


Q ss_pred             hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHH
Q 038490          200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPA  279 (344)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  279 (344)
                      .|++++|...|++.+.......-..+|..+.-|..+.|+.+.|...|++.++.... ...+.-.+.....+.|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHH
Confidence            88888888888888876555555678888888888888888888888888887655 56667778888888888888888


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHH
Q 038490          280 ILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVI  334 (344)
Q Consensus       280 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  334 (344)
                      .++.....+. ++..+....|+.-...|+.+.+-++=..+.+.  .|...-|...
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~f  246 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQTF  246 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHhH
Confidence            8888887765 67777777788888888888777766666553  4555544443

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

Probab=99.49  E-value=2.3e-11  Score=98.31  Aligned_cols=281  Identities=13%  Similarity=0.021  Sum_probs=209.2

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHH--HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDL--IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      +.-+.++|+++.|+++++-+.+..+          +....+-+.  ++..+..-.++..|.+.-+......  .-+....
T Consensus       426 a~~~lk~~d~~~aieilkv~~~kdn----------k~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d--ryn~~a~  493 (840)
T KOG2003|consen  426 AGELLKNGDIEGAIEILKVFEKKDN----------KTASAAANNLCALRFLQGGKDFADAQQYADIALNID--RYNAAAL  493 (840)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhccc----------hhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc--ccCHHHh
Confidence            3457789999999999988754432          111222222  2333333457888888877766543  2233333


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      ..-.......|++++|.+.|.+.+..+.......|| +.-.+-..|++++|+..|-++...-..+......+...|-...
T Consensus       494 ~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~le  572 (840)
T KOG2003|consen  494 TNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLE  572 (840)
T ss_pred             hcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            333444556899999999999998655333333333 3334677899999999998886655577888888999999999


Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                      +...|++++.+.... ++.|+...+.+...|-+.|+-.+|.+.+-+--+  -++-+..+..-|...|....-+++++..|
T Consensus       573 d~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~  649 (840)
T KOG2003|consen  573 DPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYF  649 (840)
T ss_pred             CHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999999887665 667889999999999999999999988765333  24557888888888899999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHH-HHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038490          247 EEMVRDKIEMDAGIYSSLISAL-FKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEED  308 (344)
Q Consensus       247 ~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  308 (344)
                      ++..-  +.|+..-|..++..| .+.|++.+|.++++..... ++-|......|++.+...|.
T Consensus       650 ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  650 EKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            98765  478999999887665 4589999999999999876 45588888888888877764

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

Probab=99.49  E-value=5.7e-10  Score=94.21  Aligned_cols=281  Identities=10%  Similarity=0.011  Sum_probs=211.7

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ..+|..-...|.+.+.++-|..+|....+.  ++-+...|......--..|..++...+++++...- +.....|.....
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ak  592 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAK  592 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHH
Confidence            456666777777777777777777777764  34556667666666666777888888888877653 445566667777


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEA  206 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  206 (344)
                      .+...|+...|..++...-+..+.+...|-+-+..-..+.++++|..+|.+....  .|+...|..-+....-.++.++|
T Consensus       593 e~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  593 EKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHH
Confidence            7777888888888888888777777788888888888888888888888877664  45666666656556667888899


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH
Q 038490          207 LKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  286 (344)
                      .+++++.++.+  +.-...|..+.+.+-+.++++.|.+.|..-.+. ++-.+..|-.|...--+.|.+-.|..++++.+-
T Consensus       671 ~rllEe~lk~f--p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarl  747 (913)
T KOG0495|consen  671 LRLLEEALKSF--PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARL  747 (913)
T ss_pred             HHHHHHHHHhC--CchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHh
Confidence            99988888753  444667778888888888888888888776665 233566777777777888899999999999988


Q ss_pred             cCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHH
Q 038490          287 RGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGG  337 (344)
Q Consensus       287 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  337 (344)
                      +++. +...|...|+.-.+.|..+.|..++.+..+. ++-+...|..-|..
T Consensus       748 kNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~l  796 (913)
T KOG0495|consen  748 KNPK-NALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWL  796 (913)
T ss_pred             cCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHh
Confidence            8766 8889999999999999999999888877653 33344445444443

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

Probab=99.48  E-value=7.5e-12  Score=96.77  Aligned_cols=230  Identities=14%  Similarity=0.111  Sum_probs=153.6

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 038490           51 DLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT  130 (344)
Q Consensus        51 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  130 (344)
                      +.+..+|.+.|.+.+|...|+...+.   .|.+.||..|-+.|.+..+.+.|+.++.+-.+.- +-++.......+.+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHH
Confidence            55667777777777777777766653   4566667777777777777777777777666542 4455555556666667


Q ss_pred             cCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHH
Q 038490          131 CGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLK  210 (344)
Q Consensus       131 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (344)
                      .++.++|.++++...+..+.++.....+...|.-.++.+.|+.+++++.+-|+. +...|..+.-+|.-.+++|-++.-|
T Consensus       303 m~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            777777777777777666666666666677777777777777777777777665 5666666666666677777777777


Q ss_pred             HHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          211 EDIMRVYNVKPD--GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       211 ~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .+.+... ..|+  ..+|..+-......||+..|.+.|+-....+.. +...++.|.-.-.+.|++++|..++......
T Consensus       382 ~RAlsta-t~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  382 QRALSTA-TQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHhhc-cCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            7655432 1222  345555655566677777777777777666544 5666777776677777777777777766654

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

Probab=99.47  E-value=4.1e-10  Score=90.00  Aligned_cols=291  Identities=11%  Similarity=-0.017  Sum_probs=220.1

Q ss_pred             cccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh-HHHHHHH
Q 038490           13 RLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI-IFCNVIG   91 (344)
Q Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~   91 (344)
                      +..++...|.+.|-.+..         ...++.|+.....+..++...|+.++|...|++....   .|... ....-.-
T Consensus       207 ~~~~~hs~a~~t~l~le~---------~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~---dpy~i~~MD~Ya~  274 (564)
T KOG1174|consen  207 MFNFKHSDASQTFLMLHD---------NTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA---NPDNVEAMDLYAV  274 (564)
T ss_pred             HHhcccchhhhHHHHHHh---------hccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC---ChhhhhhHHHHHH
Confidence            334455555555444322         2346678999999999999999999999999987653   34432 2222233


Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHH
Q 038490           92 FYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDA  171 (344)
Q Consensus        92 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (344)
                      .+.+.|+.+....+...+.... +-+...|..-........+++.|+.+.++..+..+.+...+-.-...+...|+.++|
T Consensus       275 LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A  353 (564)
T KOG1174|consen  275 LLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQA  353 (564)
T ss_pred             HHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHH
Confidence            4567788888888888877543 344455555566666778899999999999988888888888888889999999999


Q ss_pred             HHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHH-HHH-HhcCChHHHHHHHHHH
Q 038490          172 WKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLI-KGL-CAVGELSLALGVKEEM  249 (344)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~-~~~~~~~~a~~~~~~~  249 (344)
                      .-.|+..... -+-+...|.-++..|...|++.+|..+-+..++..  +.+..+...+. ..+ .....-++|.++++..
T Consensus       354 ~IaFR~Aq~L-ap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~--~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~  430 (564)
T KOG1174|consen  354 VIAFRTAQML-APYRLEIYRGLFHSYLAQKRFKEANALANWTIRLF--QNSARSLTLFGTLVLFPDPRMREKAKKFAEKS  430 (564)
T ss_pred             HHHHHHHHhc-chhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh--hcchhhhhhhcceeeccCchhHHHHHHHHHhh
Confidence            9999987765 23477899999999999999999999988887753  44555554442 222 2233457899999988


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          250 VRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       250 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      .+..+. -....+.+...|...|..++++.++++....  .||....+.|...+...+.+++|+..|......
T Consensus       431 L~~~P~-Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  431 LKINPI-YTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             hccCCc-cHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            877543 4566778889999999999999999998875  689999999999999999999999999988764

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.45  E-value=8.7e-11  Score=99.46  Aligned_cols=238  Identities=18%  Similarity=0.169  Sum_probs=178.9

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhc-----C-CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHhcc-----CC-
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSF-----N-VQMTV-KFFNTLLNPKLTCGKLDRMKELFQIMEKY-----VS-  149 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-  149 (344)
                      ..+...+...|...|+++.|..++....+.     | ..|.. ...+.+...|...+++++|..+|+++...     |. 
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            356667999999999999999999998865     2 12333 34555778899999999999999887543     22 


Q ss_pred             --CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC-----CC-CcCH-hhHHHHHHHHHhhchHHHHHHHHHHHHHhcC--
Q 038490          150 --PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR-----RL-QPTL-VTFGTLIYGLCLELRVDEALKLKEDIMRVYN--  218 (344)
Q Consensus       150 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  218 (344)
                        .-..+++.|...|.+.|++++|...+++..+-     |. .|.+ ..++.+...++..+++++|..+++..++...  
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence              23456777888899999999988888776431     22 2222 2355666788889999999999988765432  


Q ss_pred             CCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----C--CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH-
Q 038490          219 VKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRD-----K--IEMDAGIYSSLISALFKAGRKNEFPAILKEMKE-  286 (344)
Q Consensus       219 ~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-  286 (344)
                      +.++    ..+++.|...|.+.|++++|.+++++++..     +  ..-....++.|...|.+.+...+|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    457999999999999999999999998753     1  111245678899999999999999999987543 


Q ss_pred             ---cCCC-C-ChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          287 ---RGCK-P-NSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       287 ---~~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                         .|+. | ...+|..|...|...|+++.|.++.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               3322 2 33678999999999999999999988875

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

Probab=99.44  E-value=1.7e-09  Score=88.03  Aligned_cols=299  Identities=13%  Similarity=0.105  Sum_probs=190.8

Q ss_pred             cCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHH
Q 038490           15 QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYG   94 (344)
Q Consensus        15 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~   94 (344)
                      .|++..|.++|++-..            ..|+..+|++.|..-.+-+.++.|..++++..-   +.|+...|....+.=-
T Consensus       154 LgNi~gaRqiferW~~------------w~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~  218 (677)
T KOG1915|consen  154 LGNIAGARQIFERWME------------WEPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEE  218 (677)
T ss_pred             hcccHHHHHHHHHHHc------------CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHH
Confidence            4777778888855312            455888888888888888888888888888765   4588888888777777


Q ss_pred             hcccHHHHHHHHHHHHhc-CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHh---------------------------
Q 038490           95 RARLLERALQMFDEMSSF-NV-QMTVKFFNTLLNPKLTCGKLDRMKELFQIME---------------------------  145 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---------------------------  145 (344)
                      +.|.+..|.++|+...+. |- ..+...+++....=.++..++.|.-+|+-..                           
T Consensus       219 k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~g  298 (677)
T KOG1915|consen  219 KHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEG  298 (677)
T ss_pred             hcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhh
Confidence            888888888888877643 10 0111222222222223333444443333222                           


Q ss_pred             -----------------ccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH---------------------
Q 038490          146 -----------------KYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL---------------------  187 (344)
Q Consensus       146 -----------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------------  187 (344)
                                       ..++.|-.+|-..++.-...|+.+...++|++.... ++|-.                     
T Consensus       299 IEd~Iv~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEl  377 (677)
T KOG1915|consen  299 IEDAIVGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEEL  377 (677)
T ss_pred             hHHHHhhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHH
Confidence                             223344455666666666778888888888887765 44421                     


Q ss_pred             -----------------------hhHHHHHHHH----HhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          188 -----------------------VTFGTLIYGL----CLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       188 -----------------------~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                                             .||..+--.|    .+..+...|.+++...+   |..|-..+|...|..-.+.++++
T Consensus       378 e~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efD  454 (677)
T KOG1915|consen  378 EAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFD  454 (677)
T ss_pred             HhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHH
Confidence                                   1111111111    12334444444444433   55677777777777778888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC-CCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG-CKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      .+..+++..++.++. |..+|......-...|+.+.|..+|.-..... +......|.+.|.--...|.++.|..+++++
T Consensus       455 RcRkLYEkfle~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerl  533 (677)
T KOG1915|consen  455 RCRKLYEKFLEFSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERL  533 (677)
T ss_pred             HHHHHHHHHHhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHH
Confidence            888888888888765 77888888888888889999999888887752 1112345666666667888999999999998


Q ss_pred             hhCCCCCChhhHHHHH
Q 038490          320 GDKGCKANPISYNVIL  335 (344)
Q Consensus       320 ~~~~~~p~~~~~~~ll  335 (344)
                      .+.  .+...+|.++.
T Consensus       534 L~r--t~h~kvWisFA  547 (677)
T KOG1915|consen  534 LDR--TQHVKVWISFA  547 (677)
T ss_pred             HHh--cccchHHHhHH
Confidence            875  23444555543

>PF13041 PPR_2: PPR repeat family

Probab=99.44  E-value=2.8e-13  Score=77.67  Aligned_cols=49  Identities=51%  Similarity=0.793  Sum_probs=31.7

Q ss_pred             CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          256 MDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       256 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      ||..+||.++.+|++.|++++|.++|++|.+.|++||..||+.+|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4666666666666666666666666666666666666666666666654

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

Probab=99.44  E-value=1.1e-10  Score=95.14  Aligned_cols=225  Identities=11%  Similarity=0.067  Sum_probs=149.3

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLD  135 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  135 (344)
                      .+.-.|+...|.+-|+..+...  +.+...|..+...|...++.++..+.|++..+.+ +-++.+|..=.+.+.-.++++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~--~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLD--PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcC--cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHH
Confidence            3444577777777777776642  2222336666667777777777777777777766 556667777777777777777


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHH
Q 038490          136 RMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       136 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                      +|..=|++.....+.+...|..+.-+..+.+.+++++..|++..++ .+..+..|+.....+...+++++|.+.|+..++
T Consensus       412 ~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  412 EAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            7777777777776667777777777777777777777777777766 444566777777777777777777777777665


Q ss_pred             hcCC------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH
Q 038490          216 VYNV------KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       216 ~~~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  286 (344)
                      ....      .+.+.+...++..- -.+++..|.+++++..+.+++ ....|..|...-.+.|+.++|+++|++...
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3211      11122222222222 236777777777777776655 556677777777777777777777776544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.43  E-value=2.7e-10  Score=92.37  Aligned_cols=219  Identities=14%  Similarity=0.044  Sum_probs=128.9

Q ss_pred             CCchHHHHHHHHhhhcCCCCCc--hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490           61 KMFDEMQQILHQLKHDTRIVPK--EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMK  138 (344)
Q Consensus        61 ~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  138 (344)
                      +..+.++.-+.++.......|+  ...|..+...+...|+.++|...|+...+.. +.+...|+.+...+...|+++.|.
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            3455566666666543222222  2446666667777777888877777777765 556677777777777778888888


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC
Q 038490          139 ELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN  218 (344)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  218 (344)
                      ..|++..+..+.+..+|..+..++...|++++|.+.|++..+..  |+..........+...++.++|...+.+..... 
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            77777777666666677777777777777888877777777653  322211122222344566777777776544321 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCC---CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          219 VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD---KIE---MDAGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       219 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                       .++... ..+.  ....|+...+ +.+..+.+.   .+.   .....|..+...+...|++++|...|++..+.+
T Consensus       196 -~~~~~~-~~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        196 -DKEQWG-WNIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -CccccH-HHHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             222111 1222  2234444433 233333321   110   123466677777777777777777777777654

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

Probab=99.39  E-value=5.5e-10  Score=91.12  Aligned_cols=223  Identities=13%  Similarity=0.089  Sum_probs=181.3

Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           93 YGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        93 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      +.-.|+.-.|..-|+..+... +.+...|-.+..+|....+.++....|+...+.++.++.+|..-..++.-.+++++|.
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHH
Confidence            345788899999999999876 4444558888889999999999999999999999989999999999999999999999


Q ss_pred             HHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          173 KVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      .-|++..... +.+...|-.+-.+..+.+++++++..|++..+.  ++..+..|+...+.+...++++.|.+.|+...+.
T Consensus       415 aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  415 ADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            9999998763 225566666667778899999999999998774  4777889999999999999999999999999876


Q ss_pred             CCC-----CCHH--HHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          253 KIE-----MDAG--IYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       253 ~~~-----~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      ...     .+..  +.-.++. +.-.+++..|..++.+..+..++ ....|-+|...-.+.|+.++|+++|++-..
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLV-LQWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccccccchhhhhhhHhh-hchhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            332     1111  1122221 22348899999999999987654 556789999999999999999999998764

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.38  E-value=2.1e-09  Score=87.23  Aligned_cols=227  Identities=12%  Similarity=-0.011  Sum_probs=162.9

Q ss_pred             ccHHHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHH
Q 038490           97 RLLERALQMFDEMSSFN-VQMT--VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWK  173 (344)
Q Consensus        97 ~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  173 (344)
                      +..+.++.-+.+++... ..|+  ...|..+...+...|+++.|...|++..+..+.+...|+.+...+...|++++|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            46677777777777543 1222  45678888889999999999999999999888889999999999999999999999


Q ss_pred             HHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 038490          174 VFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK  253 (344)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  253 (344)
                      .|++..+.... +..++..+..++...|++++|.+.++..++.   .|+..............++.++|...+.+.....
T Consensus       120 ~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        120 AFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            99999876422 4567777888889999999999999998875   3432222222223445678999999997765432


Q ss_pred             CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC---C--CC-ChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC
Q 038490          254 IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG---C--KP-NSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN  327 (344)
Q Consensus       254 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  327 (344)
                       .++...   ........|+..++ ..+..+.+..   +  .| ....|..+...+.+.|++++|...|++..+.++ ||
T Consensus       196 -~~~~~~---~~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~-~~  269 (296)
T PRK11189        196 -DKEQWG---WNIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV-YN  269 (296)
T ss_pred             -CccccH---HHHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ch
Confidence             223222   22334456777665 3555554321   1  11 235788899999999999999999999998653 35


Q ss_pred             hhhHHH
Q 038490          328 PISYNV  333 (344)
Q Consensus       328 ~~~~~~  333 (344)
                      ..-+..
T Consensus       270 ~~e~~~  275 (296)
T PRK11189        270 FVEHRY  275 (296)
T ss_pred             HHHHHH
Confidence            544444

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

Probab=99.37  E-value=2.5e-09  Score=79.02  Aligned_cols=198  Identities=11%  Similarity=-0.045  Sum_probs=124.4

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      ...|.-.|...|+...|..-+++.++.+ +.+..+|..+...|.+.|+.+.|.+-|++..+..+.+..+.|....-+|..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhC
Confidence            3345556666777777777777777665 445566666667777777777777777777666666666666666666777


Q ss_pred             CChhHHHHHHHHHhhCC-CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRR-LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALG  244 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  244 (344)
                      |++++|...|++....- ..--..+|..+.-+..+.|+.+.|...|++.++..  +......-.+.....+.|++..|..
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhcccchHHHH
Confidence            77777777777666541 11123455555555566677777777777666543  2233445556666666777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          245 VKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .++.....+. ++..+.-..|+.--..|+.+.+.+.=..+...
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            7766666554 56666666666666667666665555555443

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

Probab=99.34  E-value=1.1e-09  Score=87.61  Aligned_cols=265  Identities=12%  Similarity=0.029  Sum_probs=207.3

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+...|+.++|+..|++...-           .+.+...-....-.+.+.|+.+....+...+....  +-+..-
T Consensus       236 ~~lak~~~~~Gdn~~a~~~Fe~~~~~-----------dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~--~~ta~~  302 (564)
T KOG1174|consen  236 MALGKCLYYNGDYFQAEDIFSSTLCA-----------NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV--KYTASH  302 (564)
T ss_pred             HHHhhhhhhhcCchHHHHHHHHHhhC-----------ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh--hcchhh
Confidence            35677888899999999999997332           33355555555667788999999999988887642  234444


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      |-.-........++..|+.+-++.++.+ +.+...+-.-...+...++.++|.-.|+......|.+..+|.-|+.+|...
T Consensus       303 wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  303 WFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhh
Confidence            5555556667889999999999999876 666777777778888999999999999999988888899999999999999


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHH-HHH-HhhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLI-YGL-CLELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~-~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  242 (344)
                      |.+.+|...-+...+. .+.+..+.+.+. ..+ ....--++|.++++..++.   .|+ ....+.+...+...|..+.+
T Consensus       382 ~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~---~P~Y~~AV~~~AEL~~~Eg~~~D~  457 (564)
T KOG1174|consen  382 KRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI---NPIYTPAVNLIAELCQVEGPTKDI  457 (564)
T ss_pred             chHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc---CCccHHHHHHHHHHHHhhCccchH
Confidence            9999998877765544 334555665552 222 3344567899999886653   455 55677888888999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCC
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCK  290 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  290 (344)
                      +.+++.....  .||....+.|...+...+.+++|.+.|......+++
T Consensus       458 i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  458 IKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            9999999876  579999999999999999999999999998887543

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

Probab=99.32  E-value=1.8e-08  Score=82.29  Aligned_cols=304  Identities=10%  Similarity=0.043  Sum_probs=210.2

Q ss_pred             ccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHH
Q 038490           14 LQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFY   93 (344)
Q Consensus        14 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   93 (344)
                      .++++..|..+|++...           ....+...|.-.+.+-.+..++..|..++++....  ++--...|..-+..=
T Consensus        85 sq~e~~RARSv~ERALd-----------vd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymE  151 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALD-----------VDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYME  151 (677)
T ss_pred             hHHHHHHHHHHHHHHHh-----------cccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHH
Confidence            46778899999999733           33447888999999999999999999999998874  232334555566666


Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHH
Q 038490           94 GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWK  173 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  173 (344)
                      -..|++..|.++|+.-.+.  .|+...|++.++.=.+..+++.|..++++..-.. |+..+|--...--.++|+...|..
T Consensus       152 E~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~H-P~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVH-PKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheec-ccHHHHHHHHHHHHhcCcHHHHHH
Confidence            6789999999999998875  7999999999999999999999999999986533 888899888888899999999999


Q ss_pred             HHHHHhhC-CC-CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHH----
Q 038490          174 VFDEMVKR-RL-QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD--GQVFASLIKGLCAVGELSLALGV----  245 (344)
Q Consensus       174 ~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~----  245 (344)
                      +|+...+. |- ..+...+.+...--.+...++.|.-+|+-.+..-  +.+  ...|..+..---+-|+.....+.    
T Consensus       229 VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~--pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  229 VYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI--PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            99988764 11 1122334444444445678888888888877642  333  45555555544455554333322    


Q ss_pred             ----HHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCCh-h-hHHHH--------HHHHhccCCHHH
Q 038490          246 ----KEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNS-V-TYNAL--------ISGFCKEEDFEA  311 (344)
Q Consensus       246 ----~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~-~~~~l--------~~~~~~~~~~~~  311 (344)
                          ++.+++.+ +.|-.+|--.++.-...|+.+...++|++.... ++|-. . .|.-.        +-.-....+++.
T Consensus       307 Rk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~er  384 (677)
T KOG1915|consen  307 RKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVER  384 (677)
T ss_pred             hhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence                34444444 337777777777777788888888888887765 33311 1 11111        111234667777


Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHH
Q 038490          312 AFTILDEMGDKGCKANPISYNVILGGL  338 (344)
Q Consensus       312 a~~~~~~~~~~~~~p~~~~~~~ll~~~  338 (344)
                      +.++++..++. ++-...|+..+--.|
T Consensus       385 tr~vyq~~l~l-IPHkkFtFaKiWlmy  410 (677)
T KOG1915|consen  385 TRQVYQACLDL-IPHKKFTFAKIWLMY  410 (677)
T ss_pred             HHHHHHHHHhh-cCcccchHHHHHHHH
Confidence            78888777763 333445555544333

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

Probab=99.32  E-value=6.2e-09  Score=87.44  Aligned_cols=307  Identities=13%  Similarity=0.019  Sum_probs=185.6

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      .+..++..+...|+++.|.+.+........        ...............+...|++++|.+++++..+.  .+.+.
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~   77 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALA--------ARATERERAHVEALSAWIAGDLPKALALLEQLLDD--YPRDL   77 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhc--------cCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcH
Confidence            344556666667778887666666432221        01112223334455677889999999999998875  23344


Q ss_pred             hHHHH---HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           84 IIFCN---VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        84 ~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      ..+..   ........+..+.+.+.+..... ..+........+...+...|++++|...+++.....+.+...+..+..
T Consensus        78 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~  156 (355)
T cd05804          78 LALKLHLGAFGLGDFSGMRDHVARVLPLWAP-ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAH  156 (355)
T ss_pred             HHHHHhHHHHHhcccccCchhHHHHHhccCc-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHH
Confidence            44432   11222224555556665554211 112334455566778889999999999999999888877888889999


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCC-CcCH--hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHH-H--HHHHHHH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRL-QPTL--VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVF-A--SLIKGLC  234 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~  234 (344)
                      ++...|++++|...+++...... .|+.  ..|..+...+...|++++|...+++........+..... +  .++..+.
T Consensus       157 i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  236 (355)
T cd05804         157 VLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLE  236 (355)
T ss_pred             HHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHH
Confidence            99999999999999999876532 1222  234467778889999999999999875432212222211 1  2333334


Q ss_pred             hcCChHHHHHH--HHHHHHCCC--CCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC--------ChhhHHHHHHH
Q 038490          235 AVGELSLALGV--KEEMVRDKI--EMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKP--------NSVTYNALISG  302 (344)
Q Consensus       235 ~~~~~~~a~~~--~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p--------~~~~~~~l~~~  302 (344)
                      ..|....+.+.  +........  ............++...|+.++|..+++.+......+        ..........+
T Consensus       237 ~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~  316 (355)
T cd05804         237 LAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALY  316 (355)
T ss_pred             hcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHH
Confidence            44543333332  211111111  1112222356677788899999999999886642210        11112222334


Q ss_pred             HhccCCHHHHHHHHHHHhh
Q 038490          303 FCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       303 ~~~~~~~~~a~~~~~~~~~  321 (344)
                      +...|+.++|.+.+.....
T Consensus       317 ~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         317 AFAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5688999999999888764

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.30  E-value=1.8e-09  Score=91.63  Aligned_cols=240  Identities=12%  Similarity=0.049  Sum_probs=178.1

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhc----CC-CCCchhH-HHHHHHHHHhcccHHHHHHHHHHHHhc-----C-
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHD----TR-IVPKEII-FCNVIGFYGRARLLERALQMFDEMSSF-----N-  113 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-  113 (344)
                      -..+...+...|...|+++.|..+++...+.    .| ..|...+ .+.+...|...+++++|..+|+++...     | 
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~  277 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            4455666899999999999999999987653    12 1344333 344778899999999999999999752     3 


Q ss_pred             -CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccC-----C--CC-cccHHHHHHHHHhhCChhHHHHHHHHHhhC---
Q 038490          114 -VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV-----S--PD-ACSYNILIHGCVVSRRLEDAWKVFDEMVKR---  181 (344)
Q Consensus       114 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  181 (344)
                       .+.-..+++.|..+|.+.|++++|...++...+..     .  +. ...++.+...+...+++++|..++++..+.   
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~  357 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD  357 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence             12224577888889999999999988887654321     1  22 233566778889999999999999876542   


Q ss_pred             CCCc----CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhc----C-CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          182 RLQP----TLVTFGTLIYGLCLELRVDEALKLKEDIMRVY----N-VKP-DGQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       182 ~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      -..+    -..+++.+...|...|++++|.++++++++..    + ..+ ....++.+...|.+.+++.+|.++|.+...
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            1111    24678899999999999999999999987543    1 122 245678889999999999999888877543


Q ss_pred             ----CCCC--CCHHHHHHHHHHHHHcCCcCcHHHHHHHHH
Q 038490          252 ----DKIE--MDAGIYSSLISALFKAGRKNEFPAILKEMK  285 (344)
Q Consensus       252 ----~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  285 (344)
                          .|+.  -...+|..|...|...|++++|+++.+...
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                2322  235678999999999999999999988765

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

Probab=99.29  E-value=7.2e-08  Score=81.03  Aligned_cols=273  Identities=11%  Similarity=-0.014  Sum_probs=174.4

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHH-
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE-IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNT-  123 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  123 (344)
                      ....|..+...+...|+.+.+.+.+....+.....++. .........+...|++++|.+.+++..+.. |.+...+.. 
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            55667778888888899999877777766542112222 222223445667899999999999998875 445545442 


Q ss_pred             --HHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc
Q 038490          124 --LLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL  201 (344)
Q Consensus       124 --l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  201 (344)
                        +.......+..+.+.+.+.......+........+...+...|++++|...+++..+.. +.+...+..+...+...|
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              22222224555566666555222222233444566678899999999999999999874 335667778888999999


Q ss_pred             hHHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCHHHH-H--HHHHHHHHcCCcC
Q 038490          202 RVDEALKLKEDIMRVYNVKPDG--QVFASLIKGLCAVGELSLALGVKEEMVRDKI-EMDAGIY-S--SLISALFKAGRKN  275 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~g~~~  275 (344)
                      ++++|...+++.++.....++.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|...
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~  242 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVD  242 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCC
Confidence            9999999999987653222333  3455778889999999999999999865433 1122211 1  2333344455444


Q ss_pred             cHHHHHHHHHHc---CCCCChhhHH--HHHHHHhccCCHHHHHHHHHHHhh
Q 038490          276 EFPAILKEMKER---GCKPNSVTYN--ALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       276 ~a~~~~~~~~~~---~~~p~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .+.+. +.+...   ........+.  ....++...|+.+.|..+++.+..
T Consensus       243 ~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~  292 (355)
T cd05804         243 VGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKG  292 (355)
T ss_pred             hHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            44333 222211   1111112222  456677889999999999999875

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.

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

Probab=99.21  E-value=3e-09  Score=92.85  Aligned_cols=245  Identities=15%  Similarity=0.152  Sum_probs=154.7

Q ss_pred             CCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHH
Q 038490           41 KPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF  120 (344)
Q Consensus        41 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  120 (344)
                      .++.|+..+|..+|.-|+..|+.+.|- +|.-|.-+ ..+.+...++.++....+.++.+.+.           .|...+
T Consensus        19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~k-sLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDt   85 (1088)
T KOG4318|consen   19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIK-SLPVREGVFRGLVASHKEANDAENPK-----------EPLADT   85 (1088)
T ss_pred             hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcc-cccccchhHHHHHhcccccccccCCC-----------CCchhH
Confidence            456678888888888888888888887 88877765 35666777888888877777777665           577778


Q ss_pred             HHHHHHHHHhcCChHH---HHHHHHHHhcc----CCCCcccH---------------HHHHHHHHhhCChhHHHHHHHHH
Q 038490          121 FNTLLNPKLTCGKLDR---MKELFQIMEKY----VSPDACSY---------------NILIHGCVVSRRLEDAWKVFDEM  178 (344)
Q Consensus       121 ~~~l~~~~~~~~~~~~---a~~~~~~~~~~----~~~~~~~~---------------~~l~~~~~~~~~~~~a~~~~~~~  178 (344)
                      |..|..+|...||...   ..+.+..+...    |......|               ...+......|-++.+.+++..+
T Consensus        86 yt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   86 YTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            8888888888887544   22212222111    11111111               12222333344455555555443


Q ss_pred             hhCC-CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 038490          179 VKRR-LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD  257 (344)
Q Consensus       179 ~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  257 (344)
                      .... ..|..+    +++-+.....  ...++... .+...-.|++.+|..++.+-...|+.+.|..++.+|.+.|++.+
T Consensus       166 Pvsa~~~p~~v----fLrqnv~~nt--pvekLl~~-cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  166 PVSAWNAPFQV----FLRQNVVDNT--PVEKLLNM-CKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             CcccccchHHH----HHHHhccCCc--hHHHHHHH-HHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            2221 011111    2333322222  22233322 22212268888888888888888888888888888888888887


Q ss_pred             HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038490          258 AGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEED  308 (344)
Q Consensus       258 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  308 (344)
                      ..-|..|+-+   .++...++.+++-|.+.|+.|+..|+...+..+...|.
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            7777777765   77777888888888888888888888777766666443

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

Probab=99.20  E-value=2.5e-08  Score=91.25  Aligned_cols=237  Identities=12%  Similarity=0.092  Sum_probs=190.7

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc-CC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccH
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSF-NV---QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSY  155 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  155 (344)
                      +-+...|..-|......++.++|.+++++.+.. ++   .--..+|.++++.-...|.-+...++|+++.+.. .....|
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc-d~~~V~ 1533 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC-DAYTVH 1533 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc-chHHHH
Confidence            445677888899999999999999999998853 11   1124578888888888898899999999998753 334568


Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 038490          156 NILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA  235 (344)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  235 (344)
                      ..|...|.+.+.+++|.++++.|.+. ..-....|...+..+.+..+-+.|..++.++++...-..........++.-.+
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            88999999999999999999999887 33577789999999999999999999999998764333355666777777889


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCCh--hhHHHHHHHHhccCCHHHHH
Q 038490          236 VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNS--VTYNALISGFCKEEDFEAAF  313 (344)
Q Consensus       236 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~  313 (344)
                      .|+.+.+..+|+..+...++ -...|+.+++.-.++|+.+.+..+|++....++.|-.  ..|...+..--+.|+-+.+.
T Consensus      1613 ~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            99999999999999988655 7889999999999999999999999999999876643  45677776666777755554


Q ss_pred             HHHHHH
Q 038490          314 TILDEM  319 (344)
Q Consensus       314 ~~~~~~  319 (344)
                      .+=.+.
T Consensus      1692 ~VKarA 1697 (1710)
T KOG1070|consen 1692 YVKARA 1697 (1710)
T ss_pred             HHHHHH
Confidence            443333

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

Probab=99.20  E-value=6.1e-08  Score=76.12  Aligned_cols=297  Identities=12%  Similarity=0.038  Sum_probs=218.3

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+...|++..|+.-|...           +.+.+.+..++..-...|...|+...|+.-+.+..+   .+||-..
T Consensus        42 lElGk~lla~~Q~sDALt~yHaA-----------ve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle---lKpDF~~  107 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAA-----------VEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE---LKPDFMA  107 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHH-----------HcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh---cCccHHH
Confidence            35677788889999999999988           333444666666667788999999999999999887   4777532


Q ss_pred             H-HHHHHHHHhcccHHHHHHHHHHHHhcCCCC--CHHH------------HHHHHHHHHhcCChHHHHHHHHHHhccCCC
Q 038490           86 F-CNVIGFYGRARLLERALQMFDEMSSFNVQM--TVKF------------FNTLLNPKLTCGKLDRMKELFQIMEKYVSP  150 (344)
Q Consensus        86 ~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  150 (344)
                      - ..-...+.++|.++.|..-|+..++.....  ....            ....+..+...|+...|+.....+.+..+.
T Consensus       108 ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~W  187 (504)
T KOG0624|consen  108 ARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPW  187 (504)
T ss_pred             HHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcc
Confidence            2 223456779999999999999998765211  1111            222334556679999999999999998888


Q ss_pred             CcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHH-H--
Q 038490          151 DACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVF-A--  227 (344)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~--  227 (344)
                      +...+..-..+|...|++..|+.-+....+.... +..++-.+-..+...|+.+.++...++.++.   .||...+ .  
T Consensus       188 da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl---dpdHK~Cf~~Y  263 (504)
T KOG0624|consen  188 DASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL---DPDHKLCFPFY  263 (504)
T ss_pred             hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc---CcchhhHHHHH
Confidence            9999999999999999999999888877665333 4455556677788899999999999887754   5554321 1  


Q ss_pred             -HH---------HHHHHhcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC-Ch
Q 038490          228 -SL---------IKGLCAVGELSLALGVKEEMVRDKIEMDA---GIYSSLISALFKAGRKNEFPAILKEMKERGCKP-NS  293 (344)
Q Consensus       228 -~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-~~  293 (344)
                       .+         +......+++.++.+-.+...+..+....   ..+..+-.++...|++.+|++...+....  .| |+
T Consensus       264 KklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv  341 (504)
T KOG0624|consen  264 KKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDV  341 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHH
Confidence             11         12234567788888888888877544222   33455667777889999999999998876  34 47


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          294 VTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       294 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      .++---..+|.-..+++.|+.-|+...+.
T Consensus       342 ~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  342 QVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            77777778888888899999988888764

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

Probab=99.16  E-value=3.5e-07  Score=77.72  Aligned_cols=178  Identities=13%  Similarity=0.071  Sum_probs=114.5

Q ss_pred             CCCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC
Q 038490            1 KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV   80 (344)
Q Consensus         1 ~p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   80 (344)
                      ||.|....+-.+...|+.++|....+.....           ...+...|+.+.-.+....++++|+..|.......  +
T Consensus        40 HgeslAmkGL~L~~lg~~~ea~~~vr~glr~-----------d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~--~  106 (700)
T KOG1156|consen   40 HGESLAMKGLTLNCLGKKEEAYELVRLGLRN-----------DLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE--K  106 (700)
T ss_pred             cchhHHhccchhhcccchHHHHHHHHHHhcc-----------CcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC--C
Confidence            3556666777788888899998888876333           33377788888888888889999999998887642  4


Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CCcccH---
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PDACSY---  155 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~---  155 (344)
                      .|...+.-+.-.-++.++++........+.+.. +.....|..++.++.-.|+...|..+++..++...  |+...+   
T Consensus       107 dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~s  185 (700)
T KOG1156|consen  107 DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHS  185 (700)
T ss_pred             CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHH
Confidence            445566555555556666666666665555543 33344555666666666666666666666554432  333332   


Q ss_pred             -------------------------------------HHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHH
Q 038490          156 -------------------------------------NILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI  194 (344)
Q Consensus       156 -------------------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  194 (344)
                                                           .+-...+.+.+++++|..++..+...  .||...|...+
T Consensus       186 e~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l  259 (700)
T KOG1156|consen  186 ELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGL  259 (700)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHH
Confidence                                                 22334456677788888888887776  45655554443

>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=99.16  E-value=2.7e-09  Score=85.33  Aligned_cols=247  Identities=11%  Similarity=0.047  Sum_probs=158.8

Q ss_pred             ccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHH
Q 038490           14 LQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFY   93 (344)
Q Consensus        14 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   93 (344)
                      -.|++..++.-.+ .....          ...+......+.+++...|+++.++   ..+...  -.|.......+...+
T Consensus        13 y~G~Y~~~i~e~~-~~~~~----------~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~--~~~~l~av~~la~y~   76 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFS----------PENKLERDFYQYRSYIALGQYDSVL---SEIKKS--SSPELQAVRLLAEYL   76 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTST----------CHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT--SSCCCHHHHHHHHHH
T ss_pred             HhhhHHHHHHHhh-ccCCC----------chhHHHHHHHHHHHHHHcCChhHHH---HHhccC--CChhHHHHHHHHHHH
Confidence            3578888886554 21111          1224555666788888888876544   444442  256666666666665


Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           94 GRARLLERALQMFDEMSSFNVQMT-VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      ...++-+.+..-+++........+ ..........+...|++++|++++...     .+.......+.+|.+.++++.|.
T Consensus        77 ~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~-----~~lE~~al~Vqi~L~~~R~dlA~  151 (290)
T PF04733_consen   77 SSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG-----GSLELLALAVQILLKMNRPDLAE  151 (290)
T ss_dssp             CTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT-----TCHHHHHHHHHHHHHTT-HHHHH
T ss_pred             hCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc-----CcccHHHHHHHHHHHcCCHHHHH
Confidence            554556666666655544432322 233333345666778899888877643     45667777888999999999999


Q ss_pred             HHHHHHhhCCCCcCHhhHHHHHHHHHh----hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 038490          173 KVFDEMVKRRLQPTLVTFGTLIYGLCL----ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEE  248 (344)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  248 (344)
                      +.++.|.+.+   +..+...+..++..    .+.+.+|..+|+++.+  .+.+++.+.+.+..+....|++++|.+++.+
T Consensus       152 k~l~~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~  226 (290)
T PF04733_consen  152 KELKNMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEE  226 (290)
T ss_dssp             HHHHHHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            9999988763   33444455555543    2358899999999654  4467888888888889999999999999988


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCc-CcHHHHHHHHHHc
Q 038490          249 MVRDKIEMDAGIYSSLISALFKAGRK-NEFPAILKEMKER  287 (344)
Q Consensus       249 ~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~  287 (344)
                      ....+.. ++.+...++.+....|+. +.+.+.+.++...
T Consensus       227 al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  227 ALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            8776654 677777778777788877 4567788887765

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.

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

Probab=99.15  E-value=1e-08  Score=82.11  Aligned_cols=251  Identities=14%  Similarity=0.033  Sum_probs=162.8

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      ++-+.-.|++..++.-.+ ..... -..+......+.+++...|+.+.++   .++.... .|.......+...+...++
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~-~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~   81 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFS-PENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSD   81 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTST-CHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTT
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCC-chhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccc
Confidence            455667799999987666 33221 1122344556778888899877544   4444443 6666666656555544345


Q ss_pred             hHHHHHHHHHHhccCCC-CcccH-HHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHH
Q 038490          134 LDRMKELFQIMEKYVSP-DACSY-NILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKE  211 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~-~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (344)
                      -+.+..-++........ +..++ ......+...|++++|++++.+.      .+.......+..+.+.++++.|.+.++
T Consensus        82 ~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   82 KESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             HHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55555555444332222 22223 33335667789999999888653      256666778889999999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          212 DIMRVYNVKPDGQVFASLIKGLCA----VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       212 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .+.+   ...| .+...+..++..    .+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+....
T Consensus       156 ~~~~---~~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~  230 (290)
T PF04733_consen  156 NMQQ---IDED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK  230 (290)
T ss_dssp             HHHC---CSCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC
T ss_pred             HHHh---cCCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9643   2344 344445554433    34689999999998765 4568899999999999999999999999998776


Q ss_pred             CCCCChhhHHHHHHHHhccCCH-HHHHHHHHHHhhC
Q 038490          288 GCKPNSVTYNALISGFCKEEDF-EAAFTILDEMGDK  322 (344)
Q Consensus       288 ~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  322 (344)
                      +.. +..+...++.+....|+. +.+.+++.++...
T Consensus       231 ~~~-~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  231 DPN-DPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             -CC-HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             ccC-CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            544 667777778777888887 7788888888764

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=99.11  E-value=1.5e-08  Score=84.59  Aligned_cols=223  Identities=13%  Similarity=0.030  Sum_probs=181.6

Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHH
Q 038490           92 FYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDA  171 (344)
Q Consensus        92 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (344)
                      -+.+.|++.+|.-.|+...+.+ |-+...|..|.......++-..|+..+++..+..+.+....-.|.-.|...|.-..|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            3457899999999999999887 778899999999999999999999999999999889999999999999999999999


Q ss_pred             HHHHHHHhhCCCC-----c---CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          172 WKVFDEMVKRRLQ-----P---TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       172 ~~~~~~~~~~~~~-----~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      ...++.-.....+     +   +...-..  ..+.....+....++|-++....+..+|..++..|.-.|--.|++++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9999987654211     0   0000000  1223344556677777777777776688888888888889999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          244 GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN-SVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      +.|+..+...+. |..+||-|...++...+.++|+..|.+.++.  +|+ ++....|.-.|...|.+++|.+.|=..+
T Consensus       451 Dcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  451 DCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            999999998766 8999999999999999999999999999987  454 3455567778999999999999887664

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

Probab=99.10  E-value=6.8e-07  Score=77.52  Aligned_cols=201  Identities=11%  Similarity=0.017  Sum_probs=111.6

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      +..+.-.+...|++..+.+.|++..+           ..--..+.|+.+...+...|.-..|..+++.-.....-+++..
T Consensus       326 ~d~Lt~al~~~g~f~~lae~fE~~~~-----------~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  326 FDHLTFALSRCGQFEVLAEQFEQALP-----------FSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhH-----------hhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            44555666677788888888877622           2222456677777777777777777777776554321133334


Q ss_pred             HHHHHHHHHH-hcccHHHHHHHHHHHHhc--CC--CCCHHHHHHHHHHHHhc-----------CChHHHHHHHHHHhccC
Q 038490           85 IFCNVIGFYG-RARLLERALQMFDEMSSF--NV--QMTVKFFNTLLNPKLTC-----------GKLDRMKELFQIMEKYV  148 (344)
Q Consensus        85 ~~~~l~~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~  148 (344)
                      .+-...+.|. +.+.+++++.+-.+....  +.  ......|..+.-+|...           ....++.+.+++..+.+
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            4433334443 345555655555555441  10  11222333333333221           12345556666666655


Q ss_pred             CCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          149 SPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      +.|+....-+.--|+..++++.|++...+..+-+..-+...|..+.-.+...+++.+|+.+.+..+.+
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E  542 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE  542 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            54554444455556666777777777777766654556666666666666666666666665555443

>PLN02789 farnesyltranstransferase

Probab=99.07  E-value=6e-07  Score=73.01  Aligned_cols=215  Identities=9%  Similarity=-0.008  Sum_probs=130.7

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRAR-LLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      ++..+-..+...++.++|+.+..++....  +-+..+|+.--.++...+ ++++++..++.+.+.+ +.+..+|+.-..+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            44555556666788888888888888742  233445555555555666 5788888888888776 5566667766555


Q ss_pred             HHhcCCh--HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh---ch
Q 038490          128 KLTCGKL--DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE---LR  202 (344)
Q Consensus       128 ~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~  202 (344)
                      +.+.|+.  +.+..+++++.+..+.+..+|+....++...|+++++++.++++.+.+.. +...|+.....+.+.   |.
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccc
Confidence            5555652  56777777777777777888888888888888888888888888877544 455555544444333   11


Q ss_pred             H----HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 038490          203 V----DEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV----GELSLALGVKEEMVRDKIEMDAGIYSSLISALFK  270 (344)
Q Consensus       203 ~----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  270 (344)
                      .    +..+....+++...  +-+...|+-+...+...    ++..+|...+.+....++. +......|+..|+.
T Consensus       195 ~~~~~e~el~y~~~aI~~~--P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        195 LEAMRDSELKYTIDAILAN--PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             ccccHHHHHHHHHHHHHhC--CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHh
Confidence            2    23444444444432  33445555555555442    2334455555555544332 44555555555553

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

Probab=99.06  E-value=1.1e-06  Score=74.92  Aligned_cols=171  Identities=16%  Similarity=0.116  Sum_probs=93.8

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC---HhhHHHHHHHHHhhchHHHHHHHHHHHHHhc---------CC--
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT---LVTFGTLIYGLCLELRVDEALKLKEDIMRVY---------NV--  219 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~--  219 (344)
                      .|..+...|-..|+++.|..+|++..+-..+--   ..+|......-.+..+++.|+++++......         +.  
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~p  468 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEP  468 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCc
Confidence            456677777888888888888888776543311   2233333444455667778887776653210         00  


Q ss_pred             -----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCCh-
Q 038490          220 -----KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNS-  293 (344)
Q Consensus       220 -----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-  293 (344)
                           ..+..+|..++..--..|-++....+++.+.+..+. ++.+.......+-.+.-++++.+++++-...=..|++ 
T Consensus       469 vQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~  547 (835)
T KOG2047|consen  469 VQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVY  547 (835)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHH
Confidence                 112334556666666677788888888888776554 4443333333334444455555555544433222332 


Q ss_pred             hhHHHHHHHHhc---cCCHHHHHHHHHHHhhCCCCC
Q 038490          294 VTYNALISGFCK---EEDFEAAFTILDEMGDKGCKA  326 (344)
Q Consensus       294 ~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p  326 (344)
                      ..|+..+.-+.+   ....+.|..+|++..+ |.+|
T Consensus       548 diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp  582 (835)
T KOG2047|consen  548 DIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPP  582 (835)
T ss_pred             HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCH
Confidence            234444443332   1245666666666665 4544

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

Probab=99.06  E-value=1.9e-07  Score=85.75  Aligned_cols=235  Identities=10%  Similarity=0.081  Sum_probs=186.7

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc---hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHH
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK---EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF  120 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  120 (344)
                      |.....|-..|....+.++.++|++++++....-.+.-.   ...|.++++.--..|.-+...++|+++.+..  -.-.+
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            347778999999999999999999999999875222222   2456677777777788899999999999853  22457


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC---HhhHHHHHHHH
Q 038490          121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT---LVTFGTLIYGL  197 (344)
Q Consensus       121 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~  197 (344)
                      |..|...|.+.+..++|.++++.|.+........|...+..+.+..+-+.|..++.+..+.  -|.   .......+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHH
Confidence            8999999999999999999999998876678889999999999999999999999998876  233   23344445556


Q ss_pred             HhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCcC
Q 038490          198 CLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD--AGIYSSLISALFKAGRKN  275 (344)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~  275 (344)
                      .+.|+.+.+..+|+..+..+  +--...|+.+++.-.++|+.+.++.+|+++...++.|-  -..|...+..--+.|+-+
T Consensus      1611 Fk~GDaeRGRtlfEgll~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            78999999999999988754  55677899999999999999999999999999887654  245666666666677766


Q ss_pred             cHHHHHHHH
Q 038490          276 EFPAILKEM  284 (344)
Q Consensus       276 ~a~~~~~~~  284 (344)
                      .++.+=.++
T Consensus      1689 ~vE~VKarA 1697 (1710)
T KOG1070|consen 1689 NVEYVKARA 1697 (1710)
T ss_pred             hHHHHHHHH
Confidence            555544443

>PLN02789 farnesyltranstransferase

Probab=99.06  E-value=5.1e-07  Score=73.39  Aligned_cols=220  Identities=8%  Similarity=0.019  Sum_probs=166.5

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh--hHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG-KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL--EDA  171 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a  171 (344)
                      ..++.++|+.+.+++++.+ +-+..+|+.--.++...| ++++++..++++....+.+..+|+.....+.+.|+.  +++
T Consensus        49 ~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         49 SDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHH
Confidence            4467788999999998876 556667777767777777 689999999999988888888888776666667763  678


Q ss_pred             HHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---CC----hHHHHH
Q 038490          172 WKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV---GE----LSLALG  244 (344)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~----~~~a~~  244 (344)
                      +..++++.+...+ +..+|+...-++...|+++++++.+.++++..  +.+...|+.....+.+.   |.    .++...
T Consensus       128 l~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~  204 (320)
T PLN02789        128 LEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSELK  204 (320)
T ss_pred             HHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHHHH
Confidence            8999999887543 77788888888888999999999999998864  44566666655555444   22    246788


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHc----CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccC-------------
Q 038490          245 VKEEMVRDKIEMDAGIYSSLISALFKA----GRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEE-------------  307 (344)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-------------  307 (344)
                      ...+++...+. |...|+.+...+...    +...+|..++.+....++. +......|+..|+...             
T Consensus       205 y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~~~~~~~~~~~~~~~~  282 (320)
T PLN02789        205 YTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCEGLQPTAEFRDTVDTL  282 (320)
T ss_pred             HHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHhhhccchhhhhhhhcc
Confidence            88788887655 888888888888773    4456798999887775433 6777888888887632             


Q ss_pred             -----CHHHHHHHHHHHh
Q 038490          308 -----DFEAAFTILDEMG  320 (344)
Q Consensus       308 -----~~~~a~~~~~~~~  320 (344)
                           ..++|.++++.+.
T Consensus       283 ~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        283 AEELSDSTLAQAVCSELE  300 (320)
T ss_pred             ccccccHHHHHHHHHHHH
Confidence                 3478999999984

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.03  E-value=1.5e-07  Score=74.15  Aligned_cols=59  Identities=15%  Similarity=0.130  Sum_probs=36.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          229 LIKGLCAVGELSLALGVKEEMVRDKIE--MDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       229 l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +...+.+.|++.+|...++...+..+.  .....+..+..++...|++++|...++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            444566667777777777776654321  13456666677777777777777766666554

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.03  E-value=1.2e-07  Score=73.10  Aligned_cols=281  Identities=11%  Similarity=0.075  Sum_probs=170.3

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHH-HHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNT-LLNPK  128 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~  128 (344)
                      +.+++..+.+..++..|++++....+..  +.+...++.|..+|....++..|...|+.+...  -|...-|.. -.+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            5566667788899999999999887752  347777888999999999999999999999875  354444443 34667


Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHH
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALK  208 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  208 (344)
                      .+.+.+..|+++...|.+.......+...-.......+++..+..++++....|   +..+.........+.|+++.|.+
T Consensus        89 Y~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             HHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHH
Confidence            778889999999988875321112222222233345677777777777765433   33344444444567788888888


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-------------CHH---------------H
Q 038490          209 LKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM-------------DAG---------------I  260 (344)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~~---------------~  260 (344)
                      -|+...+..|+.|- ..|+..+ +..+.|++..|++...++.+.|++-             |+.               .
T Consensus       166 kFqaAlqvsGyqpl-lAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eA  243 (459)
T KOG4340|consen  166 KFQAALQVSGYQPL-LAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEA  243 (459)
T ss_pred             HHHHHHhhcCCCch-hHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHH
Confidence            88887777776664 3455444 3446677888888877777665431             111               1


Q ss_pred             HHHHHHHHHHcCCcCcHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHh
Q 038490          261 YSSLISALFKAGRKNEFPAILKEMKER-GCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLC  339 (344)
Q Consensus       261 ~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~  339 (344)
                      +|.-...+.+.|+++.|.+.+-.|.-+ .-..|+.|...+.-.-. .+++-+..+-++-+...+. -...|+..++-.||
T Consensus       244 fNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyC  321 (459)
T KOG4340|consen  244 FNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFANLLLLYC  321 (459)
T ss_pred             hhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHHHHHHHHh
Confidence            222223345567777777766666322 12234455443322211 2233333333333333321 23456666666665


Q ss_pred             hc
Q 038490          340 KD  341 (344)
Q Consensus       340 ~~  341 (344)
                      ++
T Consensus       322 KN  323 (459)
T KOG4340|consen  322 KN  323 (459)
T ss_pred             hh
Confidence            54

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

Probab=99.03  E-value=8.5e-08  Score=80.26  Aligned_cols=254  Identities=10%  Similarity=-0.029  Sum_probs=189.0

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG  132 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  132 (344)
                      ...-+.+.|++.+|.-.|+...+..  +-+...|..|.......++-..|+..+++..+.. +-+..+...|.-.|...|
T Consensus       291 eG~~lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg  367 (579)
T KOG1125|consen  291 EGCNLMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEG  367 (579)
T ss_pred             HHHHHHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhh
Confidence            3455778899999999999988763  5567899999999999999999999999999987 677889999999999999


Q ss_pred             ChHHHHHHHHHHhccCCCC---------cccHHHHHHHHHhhCChhHHHHHHHHHh-hCCCCcCHhhHHHHHHHHHhhch
Q 038490          133 KLDRMKELFQIMEKYVSPD---------ACSYNILIHGCVVSRRLEDAWKVFDEMV-KRRLQPTLVTFGTLIYGLCLELR  202 (344)
Q Consensus       133 ~~~~a~~~~~~~~~~~~~~---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~  202 (344)
                      .-..|...++......++-         ...-..  ..+.....+....++|-++. ..+..+|......|.-.|.-.|+
T Consensus       368 ~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~e  445 (579)
T KOG1125|consen  368 LQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGE  445 (579)
T ss_pred             hHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchH
Confidence            9999999998875543211         000000  12222233444555555544 44544677777778778899999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHH
Q 038490          203 VDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      +++|+..|+.+++..  +.|..+||.|...++...+.++|+..|++.++..+. -+.+...|.-+|...|.+++|...|-
T Consensus       446 fdraiDcf~~AL~v~--Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~-yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  446 FDRAVDCFEAALQVK--PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPG-YVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHHHhcC--CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC-eeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            999999999998753  556789999999999999999999999999998655 35555667778999999999999887


Q ss_pred             HHHHc---------CCCCChhhHHHHHHHHhccCCHHHHHH
Q 038490          283 EMKER---------GCKPNSVTYNALISGFCKEEDFEAAFT  314 (344)
Q Consensus       283 ~~~~~---------~~~p~~~~~~~l~~~~~~~~~~~~a~~  314 (344)
                      ..+..         +..++...|.+|=.++.-.++.+-+.+
T Consensus       523 ~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  523 EALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            65432         112233466666666666666554433

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

Probab=99.02  E-value=9.7e-08  Score=82.08  Aligned_cols=235  Identities=14%  Similarity=0.089  Sum_probs=184.6

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      ....++.++...|-...|+.+|+++                   ..|.-+|.+|...|+-.+|..+..+..++   +|++
T Consensus       400 ~q~~laell~slGitksAl~I~Erl-------------------emw~~vi~CY~~lg~~~kaeei~~q~lek---~~d~  457 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERL-------------------EMWDPVILCYLLLGQHGKAEEINRQELEK---DPDP  457 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhH-------------------HHHHHHHHHHHHhcccchHHHHHHHHhcC---CCcc
Confidence            3456788899999999999999887                   35778899999999999999998888773   6899


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..|..+.+......-+++|.++.+.....       .-..+.....+.+++.++.+.|+.-....+....+|..+..+..
T Consensus       458 ~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~AL  530 (777)
T KOG1128|consen  458 RLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAAL  530 (777)
T ss_pred             hhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHH
Confidence            99999999988888889999988865532       22333333445789999999999888877788889999999999


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      +.++++.|.+.|....... +-+...|+.+-.+|.+.++-.+|...+.+.++..  ..+...|-..+-...+.|.+++|.
T Consensus       531 qlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn--~~~w~iWENymlvsvdvge~eda~  607 (777)
T KOG1128|consen  531 QLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN--YQHWQIWENYMLVSVDVGEFEDAI  607 (777)
T ss_pred             HHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC--CCCCeeeechhhhhhhcccHHHHH
Confidence            9999999999999877652 2256689999999999999999999999988754  445556666777778999999999


Q ss_pred             HHHHHHHHCCC-CCCHHHHHHHHHHHHH
Q 038490          244 GVKEEMVRDKI-EMDAGIYSSLISALFK  270 (344)
Q Consensus       244 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~  270 (344)
                      +.+.++..... ..|..+...++....+
T Consensus       608 ~A~~rll~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  608 KAYHRLLDLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HHHHHHHHhhhhcccchhhHHHHHHHHh
Confidence            99998875321 1244555555554443

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

Probab=99.00  E-value=8.1e-08  Score=82.56  Aligned_cols=221  Identities=15%  Similarity=0.122  Sum_probs=171.4

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHH
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILI  159 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  159 (344)
                      +|--..-..+...+...|-...|..+|+++.         .|..++.+|...|+.++|..+..+..+ .+|+...|-.+.
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le-k~~d~~lyc~LG  464 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE-KDPDPRLYCLLG  464 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc-CCCcchhHHHhh
Confidence            3333444456777888888899998888765         477788889999998899888877776 558888888888


Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      +......-+++|.++.+....+       .-..+.....+.+++.++.+.++.-++..  +.-..+|-.+-.+..+.+++
T Consensus       465 Dv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN--PLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC--ccchhHHHhccHHHHHHhhh
Confidence            8777777778888888765433       11112222344788999999998877654  34456787888888899999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      +.|.+.|.......+. +...||.+-.+|.+.++-.+|...+.+..+.+. -+...|...+......|.+++|.+.+.++
T Consensus       536 q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~-~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY-QHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC-CCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            9999999999887654 788999999999999999999999999998874 36677888888888999999999999988


Q ss_pred             hh
Q 038490          320 GD  321 (344)
Q Consensus       320 ~~  321 (344)
                      .+
T Consensus       614 l~  615 (777)
T KOG1128|consen  614 LD  615 (777)
T ss_pred             HH
Confidence            64

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

Probab=98.99  E-value=2.1e-06  Score=71.63  Aligned_cols=310  Identities=12%  Similarity=0.024  Sum_probs=188.8

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-hhHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-EIIF   86 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~   86 (344)
                      -+......|+++.|+..|-..+.           ..++|...|..-..+|...|++++|++=-.+-.+   +.|+ ...|
T Consensus         8 kgnaa~s~~d~~~ai~~~t~ai~-----------l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~---l~p~w~kgy   73 (539)
T KOG0548|consen    8 KGNAAFSSGDFETAIRLFTEAIM-----------LSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR---LNPDWAKGY   73 (539)
T ss_pred             HHHhhcccccHHHHHHHHHHHHc-----------cCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh---cCCchhhHH
Confidence            35667789999999999988733           3344888888889999999999999887766665   3455 5788


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----------------------------------
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG----------------------------------  132 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------------------  132 (344)
                      .....++.-.|++++|+..|.+-++.. +.+...+..+.+++....                                  
T Consensus        74 ~r~Gaa~~~lg~~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l  152 (539)
T KOG0548|consen   74 SRKGAALFGLGDYEEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKIL  152 (539)
T ss_pred             HHhHHHHHhcccHHHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHH
Confidence            888888889999999999999888765 455556666665552110                                  


Q ss_pred             --------------C---hHHHHHHHHHHh-----cc--------CCCC---------c-------------ccHHHHHH
Q 038490          133 --------------K---LDRMKELFQIME-----KY--------VSPD---------A-------------CSYNILIH  160 (344)
Q Consensus       133 --------------~---~~~a~~~~~~~~-----~~--------~~~~---------~-------------~~~~~l~~  160 (344)
                                    +   +..+...+....     ..        ..|.         .             .-...+.+
T Consensus       153 ~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgn  232 (539)
T KOG0548|consen  153 EIIQKNPTSLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGN  232 (539)
T ss_pred             HHhhcCcHhhhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHH
Confidence                          0   000111100000     00        0000         0             00122333


Q ss_pred             HHHhhCChhHHHHHHHHHhhC---------------------------------CCCcCHhhHHHH-------HHHHHhh
Q 038490          161 GCVVSRRLEDAWKVFDEMVKR---------------------------------RLQPTLVTFGTL-------IYGLCLE  200 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~---------------------------------~~~~~~~~~~~l-------~~~~~~~  200 (344)
                      +..+..++..|.+-+......                                 |.. ...-|+.+       ..++.+.
T Consensus       233 aaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~  311 (539)
T KOG0548|consen  233 AAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKR  311 (539)
T ss_pred             HHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhH
Confidence            334444455555444444332                                 111 11112222       2345556


Q ss_pred             chHHHHHHHHHHHHHhcCCCCCHHH-------------------------HHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 038490          201 LRVDEALKLKEDIMRVYNVKPDGQV-------------------------FASLIKGLCAVGELSLALGVKEEMVRDKIE  255 (344)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~-------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  255 (344)
                      ++++.++..|.+.+..+. .|+...                         ...-...+.+.|++..|...|.++++..+.
T Consensus       312 ~~~~~ai~~~~kaLte~R-t~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~  390 (539)
T KOG0548|consen  312 EDYEGAIKYYQKALTEHR-TPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPE  390 (539)
T ss_pred             HhHHHHHHHHHHHhhhhc-CHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCc
Confidence            777888888777654422 222211                         111134456778888899999888888755


Q ss_pred             CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 038490          256 MDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVIL  335 (344)
Q Consensus       256 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll  335 (344)
                       |...|..-.-+|.+.|.+..|+.-.+...+.+. +....|.-=..++....+++.|.+.|++..+..  |+..-+.--+
T Consensus       391 -Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~ydkAleay~eale~d--p~~~e~~~~~  466 (539)
T KOG0548|consen  391 -DARLYSNRAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEYDKALEAYQEALELD--PSNAEAIDGY  466 (539)
T ss_pred             -hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--chhHHHHHHH
Confidence             888888888888888888888888887777632 234445444555556678888888888887753  5444444333


Q ss_pred             HHH
Q 038490          336 GGL  338 (344)
Q Consensus       336 ~~~  338 (344)
                      .-|
T Consensus       467 ~rc  469 (539)
T KOG0548|consen  467 RRC  469 (539)
T ss_pred             HHH
Confidence            333

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

Probab=98.99  E-value=2.6e-07  Score=69.94  Aligned_cols=119  Identities=16%  Similarity=0.204  Sum_probs=69.6

Q ss_pred             hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HHcCC--cCc
Q 038490          200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISAL-FKAGR--KNE  276 (344)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~  276 (344)
                      .++.+++...++..++..  +.+...|..+...|...|++++|...+++..+..+. +...+..+..++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~~--P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHH
Confidence            444455555555555432  445566666666666666666666666666665543 555555555543 44455  356


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          277 FPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       277 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      |.+++++..+.+.. +...+..+...+.+.|++++|...|+++.+.
T Consensus       129 A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        129 TREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66666666665433 5555566666666666666666666666654

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

Probab=98.98  E-value=2.1e-06  Score=67.75  Aligned_cols=266  Identities=11%  Similarity=0.020  Sum_probs=197.3

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhH-HHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHY-DLIITKLGRAKMFDEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   82 (344)
                      ++.+-++.|...|+...|+.-|.++.+..            ||...- -.-...+.+.|.+++|..-|+.+....   |+
T Consensus        74 aifrRaT~yLAmGksk~al~Dl~rVlelK------------pDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~---~s  138 (504)
T KOG0624|consen   74 AIFRRATVYLAMGKSKAALQDLSRVLELK------------PDFMAARIQRGVVLLKQGELEQAEADFDQVLQHE---PS  138 (504)
T ss_pred             HHHHHHHHHhhhcCCccchhhHHHHHhcC------------ccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcC---CC
Confidence            34555777888888888888888875432            343322 223456788999999999999998753   32


Q ss_pred             h----hH------------HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           83 E----II------------FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        83 ~----~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      .    ..            ....+..+...|+...|+.....+++.. +-+...+..=..+|...|+...|+.=++...+
T Consensus       139 ~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~ask  217 (504)
T KOG0624|consen  139 NGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASK  217 (504)
T ss_pred             cchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            1    11            2223445667899999999999999875 67888888889999999999999998888877


Q ss_pred             cCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhH----HHH---------HHHHHhhchHHHHHHHHHHH
Q 038490          147 YVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTF----GTL---------IYGLCLELRVDEALKLKEDI  213 (344)
Q Consensus       147 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l---------~~~~~~~~~~~~a~~~~~~~  213 (344)
                      ....++.++.-+-..+...|+.+.++..+++.++.  .||...+    ..+         +......++|.++....+.+
T Consensus       218 Ls~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~v  295 (504)
T KOG0624|consen  218 LSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKV  295 (504)
T ss_pred             ccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            66678888888889999999999999999998876  4554321    111         12334567788888888887


Q ss_pred             HHhcCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          214 MRVYNVKP--DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       214 ~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      ++...-.+  ....+..+..++...+++.+|++.-.++++.... |+.++.--..+|.-...++.|+.-|+...+.+
T Consensus       296 lk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~-dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  296 LKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPD-DVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCch-HHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            76532111  1234556777888899999999999999887533 68888888889998889999999998887764

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

Probab=98.97  E-value=7.7e-06  Score=69.89  Aligned_cols=270  Identities=11%  Similarity=0.089  Sum_probs=159.8

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...|...+..+.++|++..-...|++....-.+......|...+......+-++-+.++|++.++.    ++..-+..+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            345777777778888888888888887765334444566777777777777777888888877753    3333566666


Q ss_pred             HHHhcCChHHHHHHHHHHhccC-------C------------------------------------C--CcccHHHHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYV-------S------------------------------------P--DACSYNILIHG  161 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~-------~------------------------------------~--~~~~~~~l~~~  161 (344)
                      .++..+++++|.+.+..+....       +                                    +  -...|..|...
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            6777777777776665543210       0                                    1  12246788899


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh-----------------------------------------
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE-----------------------------------------  200 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------------------------------------  200 (344)
                      |.+.|.+++|..+|++....  ..+..-|+.+.++|+.-                                         
T Consensus       258 YIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~  335 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPL  335 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccch
Confidence            99999999999999987665  22334444444444321                                         


Q ss_pred             -------------------------chHHHHHHHHHHHHHhcCCCC------CHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490          201 -------------------------LRVDEALKLKEDIMRVYNVKP------DGQVFASLIKGLCAVGELSLALGVKEEM  249 (344)
Q Consensus       201 -------------------------~~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~  249 (344)
                                               |+..+-...+.++.+.  +.|      -...|..+...|-..|+++.|..+|++.
T Consensus       336 ~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~--vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  336 LLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT--VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc--cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                                     1122222222222221  111      1123566667777778888888888877


Q ss_pred             HHCCCCCC---HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC-----------CCC------ChhhHHHHHHHHhccCCH
Q 038490          250 VRDKIEMD---AGIYSSLISALFKAGRKNEFPAILKEMKERG-----------CKP------NSVTYNALISGFCKEEDF  309 (344)
Q Consensus       250 ~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----------~~p------~~~~~~~l~~~~~~~~~~  309 (344)
                      .+...+--   ..+|..-...-.++.+++.|.+++++....-           .++      +...|..+++..-..|-+
T Consensus       414 ~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtf  493 (835)
T KOG2047|consen  414 TKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTF  493 (835)
T ss_pred             hcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccH
Confidence            76544311   3345555555566667777777766654321           011      122234444444456667


Q ss_pred             HHHHHHHHHHhhCCC
Q 038490          310 EAAFTILDEMGDKGC  324 (344)
Q Consensus       310 ~~a~~~~~~~~~~~~  324 (344)
                      +....+|+++.+..+
T Consensus       494 estk~vYdriidLri  508 (835)
T KOG2047|consen  494 ESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            777777777765443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.96  E-value=2.6e-07  Score=72.77  Aligned_cols=189  Identities=9%  Similarity=-0.040  Sum_probs=129.6

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch---hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH--
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE---IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV--  118 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  118 (344)
                      ......+...+..+...|++++|...|+++....  +.+.   ..+..+..++...|++++|...++.+.+.. +.+.  
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~  106 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDA  106 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCch
Confidence            3366677888888999999999999999987753  2222   456777888889999999999999998764 2222  


Q ss_pred             -HHHHHHHHHHHhc--------CChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhh
Q 038490          119 -KFFNTLLNPKLTC--------GKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVT  189 (344)
Q Consensus       119 -~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  189 (344)
                       .++..+..++...        |+.+.|...++.+....+.+...+..+.......+          ...        ..
T Consensus       107 ~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~----------~~~--------~~  168 (235)
T TIGR03302       107 DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRN----------RLA--------GK  168 (235)
T ss_pred             HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHH----------HHH--------HH
Confidence             2455555555544        67888888888887765544444433322111000          000        01


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRDK  253 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  253 (344)
                      ...+...+.+.|++++|...++.+++...-.| ....+..+..++.+.|++++|...++.+....
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            12455678889999999999999887643223 35788889999999999999999988887653

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).

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.96  E-value=1.5e-05  Score=67.45  Aligned_cols=316  Identities=10%  Similarity=0.061  Sum_probs=185.2

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhh--cC---------
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKH--DT---------   77 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~---------   77 (344)
                      +..+.++|++++|++...++...           .+.+..++..-+-++.+.+++++|+.+.+.-..  ..         
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~-----------~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAY   87 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSI-----------VPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAY   87 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhc-----------CCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHH
Confidence            44566788999999998888433           344677777777777888888887766543221  00         


Q ss_pred             ----------------CCCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC------------------------
Q 038490           78 ----------------RIVPK-EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQM------------------------  116 (344)
Q Consensus        78 ----------------~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------------------  116 (344)
                                      |..++ ..+...-...+.+.+++++|..+|+.+.+.+.+.                        
T Consensus        88 c~Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v  167 (652)
T KOG2376|consen   88 CEYRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSV  167 (652)
T ss_pred             HHHHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhc
Confidence                            11111 1233344556778899999999999885443210                        


Q ss_pred             ---CHHHHHHH---HHHHHhcCChHHHHHHHHHHhccCC-------CCcc--------cHHHHHHHHHhhCChhHHHHHH
Q 038490          117 ---TVKFFNTL---LNPKLTCGKLDRMKELFQIMEKYVS-------PDAC--------SYNILIHGCVVSRRLEDAWKVF  175 (344)
Q Consensus       117 ---~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~--------~~~~l~~~~~~~~~~~~a~~~~  175 (344)
                         ...+|..+   ...+...|++.+|+++++...+.+.       .+..        .--.+.-.+-..|+.++|..++
T Consensus       168 ~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy  247 (652)
T KOG2376|consen  168 PEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIY  247 (652)
T ss_pred             cCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHH
Confidence               01123322   2345567889999998887732211       1101        1122344566788999999988


Q ss_pred             HHHhhCCCCcCHhh----HHHHH-----------------------------------------------HHH-------
Q 038490          176 DEMVKRRLQPTLVT----FGTLI-----------------------------------------------YGL-------  197 (344)
Q Consensus       176 ~~~~~~~~~~~~~~----~~~l~-----------------------------------------------~~~-------  197 (344)
                      ....+.... |...    -|.++                                               ..+       
T Consensus       248 ~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~  326 (652)
T KOG2376|consen  248 VDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQV  326 (652)
T ss_pred             HHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            888776422 2211    00000                                               000       


Q ss_pred             -----------------------H--hhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHH----
Q 038490          198 -----------------------C--LELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSLALGVKE----  247 (344)
Q Consensus       198 -----------------------~--~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~----  247 (344)
                                             .  +...+..+..++....+  +.+.. ..+.-.+++.....|+++.|.+++.    
T Consensus       327 r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~  404 (652)
T KOG2376|consen  327 RELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLE  404 (652)
T ss_pred             HHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Confidence                                   0  00012222222222111  11111 2344455666778899999999888    


Q ss_pred             ----HHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc--CCCCChhhHHH----HHHHHhccCCHHHHHHHHH
Q 038490          248 ----EMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER--GCKPNSVTYNA----LISGFCKEEDFEAAFTILD  317 (344)
Q Consensus       248 ----~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~----l~~~~~~~~~~~~a~~~~~  317 (344)
                          .+.+.+.  .+.+...++..+.+.++-+.|..++.+....  .-.+.....+.    +...-.+.|+-++|..+++
T Consensus       405 ~~~ss~~~~~~--~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~le  482 (652)
T KOG2376|consen  405 SWKSSILEAKH--LPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLE  482 (652)
T ss_pred             hhhhhhhhhcc--ChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHH
Confidence                5555443  3455566777788888888888888876542  11122222333    3334457799999999999


Q ss_pred             HHhhCCCCCChhhHHHHHHHHhhc
Q 038490          318 EMGDKGCKANPISYNVILGGLCKD  341 (344)
Q Consensus       318 ~~~~~~~~p~~~~~~~ll~~~~~~  341 (344)
                      ++.+.+ ++|..+...++.+|++.
T Consensus       483 el~k~n-~~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  483 ELVKFN-PNDTDLLVQLVTAYARL  505 (652)
T ss_pred             HHHHhC-CchHHHHHHHHHHHHhc
Confidence            999853 57899999999999864

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

Probab=98.93  E-value=1.6e-06  Score=73.81  Aligned_cols=306  Identities=14%  Similarity=0.064  Sum_probs=201.7

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHH
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCN   88 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   88 (344)
                      +.-+-..+++..-+++.+.+...           ++....+.....-.+...|+-++|......-.+.  -.-+...|..
T Consensus        14 ~lk~yE~kQYkkgLK~~~~iL~k-----------~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~--d~~S~vCwHv   80 (700)
T KOG1156|consen   14 ALKCYETKQYKKGLKLIKQILKK-----------FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRN--DLKSHVCWHV   80 (700)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHh-----------CCccchhHHhccchhhcccchHHHHHHHHHHhcc--CcccchhHHH
Confidence            34445567777777777776432           3334455555556677789999999998887763  2446677888


Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL  168 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (344)
                      +.-.+....++++|++.|......+ +.|..++.-+.-.-++.|+++........+.+..+.....|..++.++.-.|+.
T Consensus        81 ~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   81 LGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Confidence            8888888899999999999999887 778888888888888889999888888888777777778899999999999999


Q ss_pred             hHHHHHHHHHhhCC-CCcCHhhHHHHH------HHHHhhchHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHhcCChH
Q 038490          169 EDAWKVFDEMVKRR-LQPTLVTFGTLI------YGLCLELRVDEALKLKEDIMRVYNVKPDGQ-VFASLIKGLCAVGELS  240 (344)
Q Consensus       169 ~~a~~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~  240 (344)
                      ..|..++++..+.. -.|+...+....      ....+.|..++|.+.+.....  . ..|.. .-..-...+.+.++++
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~--~-i~Dkla~~e~ka~l~~kl~~lE  236 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEK--Q-IVDKLAFEETKADLLMKLGQLE  236 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhh--H-HHHHHHHhhhHHHHHHHHhhHH
Confidence            99999999988764 246665554333      233566777888777765322  1 22222 2234456678899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHH-HHHHHHHHcCCCCChhhHHHH-HHHHhccCCHHHHHHHHHH
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFP-AILKEMKERGCKPNSVTYNAL-ISGFCKEEDFEAAFTILDE  318 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~~~~~p~~~~~~~l-~~~~~~~~~~~~a~~~~~~  318 (344)
                      +|..++..+...++. +...|..+..++.+--+.-++. .+|....+.  .|-...-..+ +.......-.+..-.++..
T Consensus       237 eA~~~y~~Ll~rnPd-n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~  313 (700)
T KOG1156|consen  237 EAVKVYRRLLERNPD-NLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRP  313 (700)
T ss_pred             hHHHHHHHHHhhCch-hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHH
Confidence            999999999987533 4444444555554333333444 666665553  1111111111 1111112223445556667


Q ss_pred             HhhCCCCCChhhHHHH
Q 038490          319 MGDKGCKANPISYNVI  334 (344)
Q Consensus       319 ~~~~~~~p~~~~~~~l  334 (344)
                      +.+.|+++-.....+|
T Consensus       314 ~l~Kg~p~vf~dl~SL  329 (700)
T KOG1156|consen  314 LLSKGVPSVFKDLRSL  329 (700)
T ss_pred             HhhcCCCchhhhhHHH
Confidence            7777776644444443

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

Probab=98.92  E-value=9.7e-08  Score=72.28  Aligned_cols=162  Identities=13%  Similarity=0.025  Sum_probs=136.1

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      |... ......+.-.|+-+....+.......  .+-+.......+....+.|++..|...+++..... ++|..+|+.+.
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--YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc--CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHH
Confidence            5555 56677788888888888888876553  34566677778999999999999999999998877 88899999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      -+|.+.|+++.|..-|.+..+..+.+....+.+.-.+.-.|+.+.|..++......+.. |...-..+.......|+++.
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHH
Confidence            99999999999999999998888888888999999999999999999999998877533 66666677778889999999


Q ss_pred             HHHHHHH
Q 038490          206 ALKLKED  212 (344)
Q Consensus       206 a~~~~~~  212 (344)
                      |..+...
T Consensus       221 A~~i~~~  227 (257)
T COG5010         221 AEDIAVQ  227 (257)
T ss_pred             HHhhccc
Confidence            9988766

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

Probab=98.92  E-value=4.9e-06  Score=63.37  Aligned_cols=173  Identities=13%  Similarity=0.117  Sum_probs=107.7

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCC
Q 038490          104 QMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL  183 (344)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  183 (344)
                      ++.+.+.......+......-...|...|++++|++.....     .+......=+..+.+..+.+-|.+.+++|.+.. 
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-----~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id-  167 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-----ENLEAAALNVQILLKMHRFDLAEKELKKMQQID-  167 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-----chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-
Confidence            34444444433333333333445677777888887777653     244444444566667777888888888887652 


Q ss_pred             CcCHhhHHHHHHHHHh----hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 038490          184 QPTLVTFGTLIYGLCL----ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAG  259 (344)
Q Consensus       184 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  259 (344)
                        +..|.+.|..++.+    .+.+.+|.-+|+++-+  ..+|+..+.+...-++...|++++|..+++........ ++.
T Consensus       168 --ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpe  242 (299)
T KOG3081|consen  168 --EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPE  242 (299)
T ss_pred             --hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHH
Confidence              55566656665554    3467778888877544  35777777777777778888888888888888777655 566


Q ss_pred             HHHHHHHHHHHcCCcCc-HHHHHHHHHHc
Q 038490          260 IYSSLISALFKAGRKNE-FPAILKEMKER  287 (344)
Q Consensus       260 ~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  287 (344)
                      +...++..-...|...+ ..+.+..++..
T Consensus       243 tL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  243 TLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            66555555555554433 34455555544

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

Probab=98.91  E-value=4.2e-07  Score=68.91  Aligned_cols=165  Identities=11%  Similarity=0.065  Sum_probs=138.2

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      |... ..+-..+...|+-+....+........ +.+......++....+.|++..|...+++.....++|..+|+.+.-+
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaa  143 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAA  143 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHH
Confidence            4444 667788888899888888887765443 55666777799999999999999999999999999999999999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      |.+.|+++.|..-|.+..+.-.. +...++.+...+.-.|+.+.|..++......  -.-|..+-..+.......|++++
T Consensus       144 ldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~--~~ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         144 LDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLS--PAADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhC--CCCchHHHHHHHHHHhhcCChHH
Confidence            99999999999999999887333 6667788888889999999999999886543  24477888889999999999999


Q ss_pred             HHHHHHHHHH
Q 038490          242 ALGVKEEMVR  251 (344)
Q Consensus       242 a~~~~~~~~~  251 (344)
                      |.++...-..
T Consensus       221 A~~i~~~e~~  230 (257)
T COG5010         221 AEDIAVQELL  230 (257)
T ss_pred             HHhhcccccc
Confidence            9998766554

>PF12854 PPR_1: PPR repeat

Probab=98.91  E-value=2.1e-09  Score=55.35  Aligned_cols=32  Identities=53%  Similarity=1.139  Sum_probs=23.4

Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          288 GCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       288 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      |+.||..||+++|.+|++.|++++|.++|++|
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            56677777777777777777777777777766

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.88  E-value=2.1e-06  Score=77.04  Aligned_cols=233  Identities=12%  Similarity=0.077  Sum_probs=157.4

Q ss_pred             hHHHHHHHHHHhcccHHHHH-HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERAL-QMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      .....+=.+.+..|..++|- +++.++.            .++....+......++.-........+.+...+..|....
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~   96 (694)
T PRK15179         29 TILDLLEAALAEPGESEEAGRELLQQAR------------QVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARAL   96 (694)
T ss_pred             HHHhHHHHHhcCcccchhHHHHHHHHHH------------HHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHH
Confidence            33333444555666666553 3333322            1233333333333333333333333446688889999999


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      .+.|.+++|+.+++...+.  .| +......+...+.+.+++++|...+++.++..  +.+......+..++.+.|++++
T Consensus        97 ~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~~~~~~~~~a~~l~~~g~~~~  172 (694)
T PRK15179         97 EAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SSSAREILLEAKSWDEIGQSEQ  172 (694)
T ss_pred             HHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHhcchHH
Confidence            9999999999999999887  34 44566677788899999999999999988643  4556777888888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          242 ALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      |..+|+++...++. +..++..+...+...|+.++|...|++..+.. .|...-|+.++.      +...-..+++++.-
T Consensus       173 A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~------~~~~~~~~~~~~~~  244 (694)
T PRK15179        173 ADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV------DLNADLAALRRLGV  244 (694)
T ss_pred             HHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH------HHHHHHHHHHHcCc
Confidence            99999999985443 68889999999999999999999999987762 234455555443      34445556666643


Q ss_pred             ----CCCCCChhhHHHHHHHHhh
Q 038490          322 ----KGCKANPISYNVILGGLCK  340 (344)
Q Consensus       322 ----~~~~p~~~~~~~ll~~~~~  340 (344)
                          .|...........|.-|.+
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~  267 (694)
T PRK15179        245 EGDGRDVPVSILVLEKMLQEIGR  267 (694)
T ss_pred             ccccCCCceeeeeHHHHHHHHhh
Confidence                2334444555555555443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.86  E-value=9.2e-07  Score=68.38  Aligned_cols=291  Identities=15%  Similarity=0.052  Sum_probs=178.7

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      +...+..+.+..++..|++++..-.+..           +.+......+..+|-...++..|-+.++++...   .|...
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-----------p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql---~P~~~   78 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-----------PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL---HPELE   78 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-----------ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ChHHH
Confidence            3445556677888999999998764443           237778888999999999999999999999764   46555


Q ss_pred             HHHH-HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH--HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           85 IFCN-VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN--PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        85 ~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      -|.. -...+.+.+.+..|+++...|.+.   ++...-..-+.  .....+++..+..++++....  .+..+.+.....
T Consensus        79 qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e--n~Ad~~in~gCl  153 (459)
T KOG4340|consen   79 QYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE--NEADGQINLGCL  153 (459)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC--Cccchhccchhe
Confidence            4443 345566788889999998887752   22221111222  223457777777777766532  233444444555


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCC-------------CCHH----
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVK-------------PDGQ----  224 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~~~----  224 (344)
                      ..+.|+++.|.+-|+...+-+.--....|+..+ +..+.++++.|.+...++++. |++             ||+.    
T Consensus       154 lykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieR-G~r~HPElgIGm~tegiDvrsvgN  231 (459)
T KOG4340|consen  154 LYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIER-GIRQHPELGIGMTTEGIDVRSVGN  231 (459)
T ss_pred             eeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHh-hhhcCCccCccceeccCchhcccc
Confidence            567888888888888877654333455676555 456677888888887776543 221             1111    


Q ss_pred             ----HHHHHH-------HHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC
Q 038490          225 ----VFASLI-------KGLCAVGELSLALGVKEEMVRD-KIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN  292 (344)
Q Consensus       225 ----~~~~l~-------~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  292 (344)
                          .-+.++       ..+.+.|+++.|.+.+..|-.. ....|+.|...+.-.= -.+++.+..+-+.-+...++- .
T Consensus       232 t~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P  309 (459)
T KOG4340|consen  232 TLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-P  309 (459)
T ss_pred             hHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-C
Confidence                122233       3345677888887777666422 2234555554433221 134455555555555555442 4


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHHHH
Q 038490          293 SVTYNALISGFCKEEDFEAAFTILDE  318 (344)
Q Consensus       293 ~~~~~~l~~~~~~~~~~~~a~~~~~~  318 (344)
                      ..||..++-.|++..-++-|-.++-+
T Consensus       310 ~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  310 PETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             hHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            46677777777777666666665543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.86  E-value=2.5e-06  Score=77.46  Aligned_cols=234  Identities=13%  Similarity=0.106  Sum_probs=151.6

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE-IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      +.+...|..|+..+...+++++|.++.+.....   .|+. ..|-.+...+.+.++...+..+                 
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~---~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------   87 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE---HKKSISALYISGILSLSRRPLNDSNLL-----------------   87 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CCcceehHHHHHHHHHhhcchhhhhhh-----------------
Confidence            457778999999999999999999999977764   3443 3344444466666665555444                 


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR  202 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  202 (344)
                      .++.......++..+..+...+... ..+..++..+..+|-+.|+.++|..+|+++.+.. +-+....|.+...|+.. +
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~-~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLY-GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhh-hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-h
Confidence            2333333444444444444444432 2444577888888999999999999999988886 44778888888888888 8


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH-----HhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCcCc
Q 038490          203 VDEALKLKEDIMRVYNVKPDGQVFASLIKGL-----CAVGELSLALGVKEEMVRD-KIEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                      .++|.+++.+++...   .+..-|+.+...+     ....+.+.-..+.+.+... +..--..++-.+-..|....++++
T Consensus       165 L~KA~~m~~KAV~~~---i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~  241 (906)
T PRK14720        165 KEKAITYLKKAIYRF---IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDE  241 (906)
T ss_pred             HHHHHHHHHHHHHHH---HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhH
Confidence            999988888876541   1111122211111     1222334444444444432 333344556666678888889999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          277 FPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       277 a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +..+++.+.+.... |.....-++.+|.
T Consensus       242 ~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        242 VIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            99999999988655 6677777888776

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

Probab=98.85  E-value=3.4e-07  Score=69.31  Aligned_cols=156  Identities=11%  Similarity=0.094  Sum_probs=117.8

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      +-.|...|+++.+....+.+..     |.        ..+...++.+++...++...+.+ +.+...|..+...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~-----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD-----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC-----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCC
Confidence            3467788888887665533322     11        01223667788888888888776 7788899999999999999


Q ss_pred             hHHHHHHHHHHhccCCCCcccHHHHHHH-HHhhCC--hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHH
Q 038490          134 LDRMKELFQIMEKYVSPDACSYNILIHG-CVVSRR--LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLK  210 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (344)
                      ++.|...+++.....+.+...+..+..+ +...|+  .++|.+++++..+.+.. +...+..+...+...|++++|+..|
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999988888888888888876 467677  48999999999887543 6677778888888999999999999


Q ss_pred             HHHHHhcCCCCCHHHH
Q 038490          211 EDIMRVYNVKPDGQVF  226 (344)
Q Consensus       211 ~~~~~~~~~~~~~~~~  226 (344)
                      +++++..  +|+..-+
T Consensus       168 ~~aL~l~--~~~~~r~  181 (198)
T PRK10370        168 QKVLDLN--SPRVNRT  181 (198)
T ss_pred             HHHHhhC--CCCccHH
Confidence            9988754  4444333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.85  E-value=3e-06  Score=77.00  Aligned_cols=176  Identities=10%  Similarity=0.049  Sum_probs=104.3

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .++.......++..+..++..+...  .-+...+..+..+|-+.|+.+++..+++++.+..+.++.+.|.+.-.|... +
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-h
Confidence            3444444444444444444444442  233445566666666666666666666666666666666666666666666 6


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHH-----HhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGL-----CLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      +++|++++.+....-+  +..-|+.+...+     +...+.+.-.++.+.+..+.+..--..++-.+-..|.+.++++++
T Consensus       165 L~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~  242 (906)
T PRK14720        165 KEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEV  242 (906)
T ss_pred             HHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHH
Confidence            6666666666554311  111122222111     112334444455555555445555566777788888999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALF  269 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~  269 (344)
                      ..+++.+.+...+ |.....-++.+|.
T Consensus       243 i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        243 IYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            9999999998765 7777777888776

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.84  E-value=2.4e-06  Score=67.75  Aligned_cols=98  Identities=14%  Similarity=0.160  Sum_probs=49.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHH-HHHHhcc
Q 038490          229 LIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYS-SLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNAL-ISGFCKE  306 (344)
Q Consensus       229 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l-~~~~~~~  306 (344)
                      +.++++..|++.+|+++|-.+....++ |..+|. .|.++|.+.+.++-|++++-++...   .+..+...+ ...|.+.
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHH
Confidence            445555566666666666555544444 334443 3445666666666665555443321   122222222 2355566


Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHH
Q 038490          307 EDFEAAFTILDEMGDKGCKANPISYN  332 (344)
Q Consensus       307 ~~~~~a~~~~~~~~~~~~~p~~~~~~  332 (344)
                      +.+=-|-+.|+.+...  .|++.-|.
T Consensus       475 ~eFyyaaKAFd~lE~l--DP~pEnWe  498 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEIL--DPTPENWE  498 (557)
T ss_pred             HHHHHHHHhhhHHHcc--CCCccccC
Confidence            6666666666655543  45555443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.84  E-value=1.6e-06  Score=77.65  Aligned_cols=135  Identities=10%  Similarity=-0.031  Sum_probs=94.2

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHH
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILI  159 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  159 (344)
                      +.+...+..|.....+.|..++|..+++...+.. |-+......+...+.+.+++++|...+++.....+.+......+.
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a  161 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEA  161 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            4456666777777777777777777777777664 444566666777777777777777777777777666677777777


Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      .++.+.|++++|..+|+++...+ +-+..++..+..++-..|+.++|...|+..+..
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777777777777777777632 224566666666777777777777777776654

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

Probab=98.83  E-value=1.6e-05  Score=69.37  Aligned_cols=253  Identities=15%  Similarity=0.002  Sum_probs=171.1

Q ss_pred             chHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 038490           63 FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQ  142 (344)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  142 (344)
                      ..++++.+++..+..+..|+.  ...+.--|+..++.+.|.+...+..+.+-..+...|..|.-++...+++..|+.+.+
T Consensus       460 h~kslqale~av~~d~~dp~~--if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd  537 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFDPTDPLV--IFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVD  537 (799)
T ss_pred             HHHHHHHHHHHHhcCCCCchH--HHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            345777788877654444444  334555677899999999999999998557788999999999999999999999998


Q ss_pred             HHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhh------------------------------------------
Q 038490          143 IMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK------------------------------------------  180 (344)
Q Consensus       143 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------------------------------------------  180 (344)
                      ......+.|-.....-+..-...++.++++.....+..                                          
T Consensus       538 ~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls  617 (799)
T KOG4162|consen  538 AALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLS  617 (799)
T ss_pred             HHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHH
Confidence            76554332211111111111112222222211111100                                          


Q ss_pred             ---------CC---------CCc--C------HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490          181 ---------RR---------LQP--T------LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC  234 (344)
Q Consensus       181 ---------~~---------~~~--~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  234 (344)
                               .|         ..|  +      ...|......+.+.+..++|...+.+.-+  -.+.....|......+.
T Consensus       618 ~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~  695 (799)
T KOG4162|consen  618 SLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLE  695 (799)
T ss_pred             HHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHH
Confidence                     00         001  1      11233334455666777777666655433  22445566666667778


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHH--HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 038490          235 AVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPA--ILKEMKERGCKPNSVTYNALISGFCKEEDFEAA  312 (344)
Q Consensus       235 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  312 (344)
                      ..|..++|.+.|......++. ++....++...+.+.|+..-|..  ++.++.+.+.. +...|-.+...+.+.|+.++|
T Consensus       696 ~~~~~~EA~~af~~Al~ldP~-hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~-n~eaW~~LG~v~k~~Gd~~~A  773 (799)
T KOG4162|consen  696 VKGQLEEAKEAFLVALALDPD-HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPL-NHEAWYYLGEVFKKLGDSKQA  773 (799)
T ss_pred             HHHhhHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHccchHHH
Confidence            889999999999988887655 77888999999999998888887  89999888754 888999999999999999999


Q ss_pred             HHHHHHHhh
Q 038490          313 FTILDEMGD  321 (344)
Q Consensus       313 ~~~~~~~~~  321 (344)
                      ...|+....
T Consensus       774 aecf~aa~q  782 (799)
T KOG4162|consen  774 AECFQAALQ  782 (799)
T ss_pred             HHHHHHHHh
Confidence            999988765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.81  E-value=1e-05  Score=76.84  Aligned_cols=311  Identities=13%  Similarity=-0.004  Sum_probs=194.9

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCc--chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch-
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRY--NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE-   83 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-   83 (344)
                      ..+..+...|++++|...+..........    .....+  .......+...+...|++++|...++....... ..+. 
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~----~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~  488 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDR----NIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELP-LTWYY  488 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhcccc----CcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CccHH
Confidence            34555667889999888887652221100    000011  122233344566789999999999998765311 1111 


Q ss_pred             ---hHHHHHHHHHHhcccHHHHHHHHHHHHhcCC---CC--CHHHHHHHHHHHHhcCChHHHHHHHHHHhcc----CCCC
Q 038490           84 ---IIFCNVIGFYGRARLLERALQMFDEMSSFNV---QM--TVKFFNTLLNPKLTCGKLDRMKELFQIMEKY----VSPD  151 (344)
Q Consensus        84 ---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  151 (344)
                         ...+.+...+...|++++|...+++.....-   .+  ...+...+...+...|+++.|...+++....    +.++
T Consensus       489 ~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~  568 (903)
T PRK04841        489 SRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQ  568 (903)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhcccc
Confidence               2345566677889999999999988874310   11  1234556677788899999999988876542    1111


Q ss_pred             ----cccHHHHHHHHHhhCChhHHHHHHHHHhhC--CCCc--CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCH
Q 038490          152 ----ACSYNILIHGCVVSRRLEDAWKVFDEMVKR--RLQP--TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDG  223 (344)
Q Consensus       152 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  223 (344)
                          ...+..+...+...|++++|...+++....  ...+  ....+..+...+...|+.++|...+.+...........
T Consensus       569 ~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~  648 (903)
T PRK04841        569 LPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYH  648 (903)
T ss_pred             ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccccc
Confidence                223445556677889999999999887553  1112  23334445567778999999999998865431111111


Q ss_pred             HHH-----HHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHHcCCcCcHHHHHHHHHHc----CCCC
Q 038490          224 QVF-----ASLIKGLCAVGELSLALGVKEEMVRDKIEMD---AGIYSSLISALFKAGRKNEFPAILKEMKER----GCKP  291 (344)
Q Consensus       224 ~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p  291 (344)
                      ..+     ...+..+...|+.+.|...+...........   ...+..+..++...|+.++|...+++....    |..+
T Consensus       649 ~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~  728 (903)
T PRK04841        649 SDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMS  728 (903)
T ss_pred             HhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchH
Confidence            111     1122444568899999998877654221111   112345677888899999999999987653    3222


Q ss_pred             -ChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          292 -NSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       292 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                       ...+...+..++.+.|+.++|...+.+..+.
T Consensus       729 ~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        729 DLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1235566677888999999999999998764

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.80  E-value=7.6e-07  Score=63.83  Aligned_cols=95  Identities=7%  Similarity=-0.126  Sum_probs=70.2

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..+...+...|++++|...|+...... +.+...+..+..++...|++++|...|+......+.+...+..+..++...
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            4445666677777777777777777765 556777777777777777777777777777777667777777777777777


Q ss_pred             CChhHHHHHHHHHhhC
Q 038490          166 RRLEDAWKVFDEMVKR  181 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~  181 (344)
                      |++++|...|+.....
T Consensus       106 g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        106 GEPGLAREAFQTAIKM  121 (144)
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            7777777777777665

>PF12854 PPR_1: PPR repeat

Probab=98.79  E-value=5.3e-09  Score=53.82  Aligned_cols=32  Identities=38%  Similarity=0.484  Sum_probs=15.7

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          253 KIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       253 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      |+.||..+|+.||.+|++.|++++|.++|++|
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            34444555555555555555555555544444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.79  E-value=5.5e-07  Score=64.54  Aligned_cols=113  Identities=10%  Similarity=-0.110  Sum_probs=96.9

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      +..+......+...|++++|...|+......  +.+...+..+..++...|++++|...|+.....+ +.+...+..+..
T Consensus        24 p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~  100 (144)
T PRK15359         24 PETVYASGYASWQEGDYSRAVIDFSWLVMAQ--PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGV  100 (144)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            3346667889999999999999999998753  5578889999999999999999999999999987 778899999999


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ++...|++++|...|+......+.+...+.....+.
T Consensus       101 ~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359        101 CLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            999999999999999999887776666665544443

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

Probab=98.76  E-value=2.9e-05  Score=65.05  Aligned_cols=283  Identities=11%  Similarity=0.018  Sum_probs=186.9

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      ..+.+..|+++.|...|-..+...  ++|...|..-..+|+..|++++|++--.+..+.. |.-...|.....++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~--p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~-p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS--PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN-PDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC--CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC-CchhhHHHHhHHHHHhccc
Confidence            346678899999999999988753  6678889999999999999999999888888765 4456789999999999999


Q ss_pred             hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC-----------------------------------------------
Q 038490          134 LDRMKELFQIMEKYVSPDACSYNILIHGCVVSR-----------------------------------------------  166 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------------------------------------------  166 (344)
                      +++|...|.+-.+..+.+...++-+..++....                                               
T Consensus        86 ~~eA~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            999999999888777666666666665552110                                               


Q ss_pred             -ChhHHHHHHHHHhh--------CC-------CCc------------C----------HhhHHHHHHHHHhhchHHHHHH
Q 038490          167 -RLEDAWKVFDEMVK--------RR-------LQP------------T----------LVTFGTLIYGLCLELRVDEALK  208 (344)
Q Consensus       167 -~~~~a~~~~~~~~~--------~~-------~~~------------~----------~~~~~~l~~~~~~~~~~~~a~~  208 (344)
                       +.+..+...-.+..        .|       ..|            |          ..-...+..+..+..+++.|.+
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q  245 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQ  245 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHH
Confidence             00011111111000        00       011            0          0113344555566677778888


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH-------HHHHHcCCcCcHHHHH
Q 038490          209 LKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLI-------SALFKAGRKNEFPAIL  281 (344)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-------~~~~~~g~~~~a~~~~  281 (344)
                      -+...+...   .+..-++....+|...|.+.++...-....+.|-. ...-|+.+.       .+|.+.++++.++..|
T Consensus       246 ~y~~a~el~---~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~  321 (539)
T KOG0548|consen  246 HYAKALELA---TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHhHh---hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            777766542   44555666777788888887777776666665533 333333333       3555567778888888


Q ss_pred             HHHHHcCCCCChhhH-------------------------HHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 038490          282 KEMKERGCKPNSVTY-------------------------NALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG  336 (344)
Q Consensus       282 ~~~~~~~~~p~~~~~-------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  336 (344)
                      .+.......|+...-                         ..-...+.+.|++..|+..|.++++.. +-|...|+.-.-
T Consensus       322 ~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAa  400 (539)
T KOG0548|consen  322 QKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAA  400 (539)
T ss_pred             HHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHH
Confidence            776554433333221                         112345667889999999999998875 346777887777


Q ss_pred             HHhhcCCC
Q 038490          337 GLCKDGKC  344 (344)
Q Consensus       337 ~~~~~g~~  344 (344)
                      +|.+.|++
T Consensus       401 c~~kL~~~  408 (539)
T KOG0548|consen  401 CYLKLGEY  408 (539)
T ss_pred             HHHHHhhH
Confidence            77776653

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

Probab=98.75  E-value=1.1e-05  Score=61.44  Aligned_cols=250  Identities=10%  Similarity=0.016  Sum_probs=160.2

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      ++-+.-.|++..++..-......   +.+...-.-+.++|...|.+.....-   +.... .|.......+......-++
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~---~~~~e~d~y~~raylAlg~~~~~~~e---I~~~~-~~~lqAvr~~a~~~~~e~~   87 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSS---KTDVELDVYMYRAYLALGQYQIVISE---IKEGK-ATPLQAVRLLAEYLELESN   87 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhccc---cchhHHHHHHHHHHHHcccccccccc---ccccc-CChHHHHHHHHHHhhCcch
Confidence            45666778898888877766543   23444445566777777776644332   22222 3333334333343333444


Q ss_pred             hHHHH-HHHHHHhccCCCCcccH-HHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHH
Q 038490          134 LDRMK-ELFQIMEKYVSPDACSY-NILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKE  211 (344)
Q Consensus       134 ~~~a~-~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (344)
                      .+.-. ++.+.+......+..++ ..-...|+..|++++|++......    ..+...  .=...+.+..+++-|.+.++
T Consensus        88 ~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~----~lE~~A--l~VqI~lk~~r~d~A~~~lk  161 (299)
T KOG3081|consen   88 KKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE----NLEAAA--LNVQILLKMHRFDLAEKELK  161 (299)
T ss_pred             hHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc----hHHHHH--HHHHHHHHHHHHHHHHHHHH
Confidence            33333 33344433322233233 333467889999999999887722    223333  33345678889999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          212 DIMRVYNVKPDGQVFASLIKGLCA----VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       212 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +|.+    -.+..|.+.|.+++.+    .+.+..|.-+|++|.+. .+|+..+.+-...++...|++++|..++++...+
T Consensus       162 ~mq~----ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  162 KMQQ----IDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             HHHc----cchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9654    3456777777777754    45688999999999874 4678999999999999999999999999999888


Q ss_pred             CCCCChhhHHHHHHHHhccCC-HHHHHHHHHHHhhC
Q 038490          288 GCKPNSVTYNALISGFCKEED-FEAAFTILDEMGDK  322 (344)
Q Consensus       288 ~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~  322 (344)
                      ... ++.+...++-.-...|. .+-..+.+.++...
T Consensus       237 d~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  237 DAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             cCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            655 56666555554445554 45556677777653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.72  E-value=4e-06  Score=66.54  Aligned_cols=97  Identities=12%  Similarity=0.027  Sum_probs=45.3

Q ss_pred             HHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHH
Q 038490          193 LIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVF-ASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGI-YSSLISALFK  270 (344)
Q Consensus       193 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~  270 (344)
                      +.++.+..|.+.+|+++|-++ ....+ .+..+| ..+.++|.+++.++.|++++-.+..   +.+..+ ...+..-|.+
T Consensus       399 ~AQAk~atgny~eaEelf~~i-s~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk  473 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRI-SGPEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYK  473 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhh-cChhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHH
Confidence            344555556666666666442 11111 223333 3444556666666666555433321   112222 2233345555


Q ss_pred             cCCcCcHHHHHHHHHHcCCCCChhhH
Q 038490          271 AGRKNEFPAILKEMKERGCKPNSVTY  296 (344)
Q Consensus       271 ~g~~~~a~~~~~~~~~~~~~p~~~~~  296 (344)
                      .+.+--|-+.|+.+...  .|++.-|
T Consensus       474 ~~eFyyaaKAFd~lE~l--DP~pEnW  497 (557)
T KOG3785|consen  474 ANEFYYAAKAFDELEIL--DPTPENW  497 (557)
T ss_pred             HHHHHHHHHhhhHHHcc--CCCcccc
Confidence            56555555555555544  3444444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.71  E-value=1.8e-05  Score=71.17  Aligned_cols=175  Identities=11%  Similarity=0.076  Sum_probs=101.3

Q ss_pred             CChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHH
Q 038490          132 GKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKE  211 (344)
Q Consensus       132 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (344)
                      +.+++|.+.-++.     ..+..|..+..+-.+.|.+.+|++-|-+.      -|+..|..++....+.|.+++-.+.+.
T Consensus      1089 ~~ldRA~efAe~~-----n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~ 1157 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERC-----NEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLL 1157 (1666)
T ss_pred             hhHHHHHHHHHhh-----CChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            4445555444444     34566777777777777777777666433      166677778888888888888777775


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC
Q 038490          212 DIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKP  291 (344)
Q Consensus       212 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  291 (344)
                      -+.+ ..-.|.  +=+.++-+|++.++..+.++++       ..||......+.+-|...|.++.|.-+|.         
T Consensus      1158 MaRk-k~~E~~--id~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~--------- 1218 (1666)
T KOG0985|consen 1158 MARK-KVREPY--IDSELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYS--------- 1218 (1666)
T ss_pred             HHHH-hhcCcc--chHHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHH---------
Confidence            5333 233343  3345677777777776655433       12455555555666666666655555444         


Q ss_pred             ChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcC
Q 038490          292 NSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDG  342 (344)
Q Consensus       292 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g  342 (344)
                      ++.-|..|...+...|+++.|...-++.-      +..||..+-.+|...+
T Consensus      1219 ~vSN~a~La~TLV~LgeyQ~AVD~aRKAn------s~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1219 NVSNFAKLASTLVYLGEYQGAVDAARKAN------STKTWKEVCFACVDKE 1263 (1666)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHhhhcc------chhHHHHHHHHHhchh
Confidence            33345555555555566555554333321      4555555555555443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.71  E-value=1.2e-06  Score=62.42  Aligned_cols=97  Identities=10%  Similarity=0.109  Sum_probs=59.8

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      .....+...+...|++++|.+.++.+...+ +.+...+..+..++...|+++.|...++......+.+...+..+...+.
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            334445555666666666666666666554 4455666666666666666666666666665555555555666666666


Q ss_pred             hhCChhHHHHHHHHHhhC
Q 038490          164 VSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~  181 (344)
                      ..|++++|...|+...+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        97 ALGEPESALKALDLAIEI  114 (135)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666666666554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.69  E-value=5.9e-05  Score=71.79  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=14.0

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhh
Q 038490          298 ALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       298 ~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .+..++...|+.++|...+++...
T Consensus       696 ~~a~~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        696 NIARAQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455556666666666666654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.67  E-value=1.7e-05  Score=69.92  Aligned_cols=169  Identities=15%  Similarity=0.124  Sum_probs=94.3

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      .+.+.+..+.|..++|+.+|++.++                   |..|=..|...|.+++|.++-+.-.+.   . -..|
T Consensus       804 akvAvLAieLgMlEeA~~lYr~ckR-------------------~DLlNKlyQs~g~w~eA~eiAE~~DRi---H-Lr~T  860 (1416)
T KOG3617|consen  804 AKVAVLAIELGMLEEALILYRQCKR-------------------YDLLNKLYQSQGMWSEAFEIAETKDRI---H-LRNT  860 (1416)
T ss_pred             hHHHHHHHHHhhHHHHHHHHHHHHH-------------------HHHHHHHHHhcccHHHHHHHHhhccce---e-hhhh
Confidence            3455566677888888888877732                   444556777888888888877653322   1 2345


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHH----------hcC---------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMS----------SFN---------VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      |..-..-+...++.+.|++.|++..          ...         -..+...|.-..+-+-..|+.+.|+.++...++
T Consensus       861 yy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  861 YYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence            6666666666778888888777642          111         012333444444545567888888888876654


Q ss_pred             cCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHH
Q 038490          147 YVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKE  211 (344)
Q Consensus       147 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (344)
                              |..+++..+-.|+.++|-++-++-.      |....-.+.+.|...|++.+|..+|.
T Consensus       941 --------~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfT  991 (1416)
T KOG3617|consen  941 --------YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFT  991 (1416)
T ss_pred             --------hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence                    3333333344444444444433211      22333334444444444444444443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.67  E-value=8.7e-05  Score=63.05  Aligned_cols=199  Identities=13%  Similarity=0.133  Sum_probs=127.6

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK  128 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  128 (344)
                      ...+=+..+...|++++|.+...++...  .+.+...+..-+-+..+.+.+++|+.+.+.-...  ..+...+-.-..+.
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~--~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~   89 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSI--VPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCE   89 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhc--CCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHH
Confidence            3444556778889999999999999874  4555677777777888999999998655543211  11111112334455


Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCc-----------------------
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP-----------------------  185 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------  185 (344)
                      .+.+..++|...++-+.+   .+..+...-...+.+.|++++|..+|+.+.+.+.+-                       
T Consensus        90 Yrlnk~Dealk~~~~~~~---~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   90 YRLNKLDEALKTLKGLDR---LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             HHcccHHHHHHHHhcccc---cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            678889999888883332   344455666677888999999999998886543210                       


Q ss_pred             ----CHhhHHHHH---HHHHhhchHHHHHHHHHHHHHhc-------CCC-----CCH-HHHHHHHHHHHhcCChHHHHHH
Q 038490          186 ----TLVTFGTLI---YGLCLELRVDEALKLKEDIMRVY-------NVK-----PDG-QVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       186 ----~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~-------~~~-----~~~-~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                          ...+|..+.   ..+...|++.+|+++++..++-.       ...     ... .+--.+...+-..|+.++|..+
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence                112343333   23456789999999998873211       000     011 1122344556678999999998


Q ss_pred             HHHHHHCCC
Q 038490          246 KEEMVRDKI  254 (344)
Q Consensus       246 ~~~~~~~~~  254 (344)
                      +....+.++
T Consensus       247 y~~~i~~~~  255 (652)
T KOG2376|consen  247 YVDIIKRNP  255 (652)
T ss_pred             HHHHHHhcC
Confidence            888877654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.66  E-value=5.9e-05  Score=57.27  Aligned_cols=188  Identities=11%  Similarity=0.009  Sum_probs=84.4

Q ss_pred             CCchHHHHHHHHhhhcC--C-CCCchh-HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490           61 KMFDEMQQILHQLKHDT--R-IVPKEI-IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDR  136 (344)
Q Consensus        61 ~~~~~a~~~~~~~~~~~--~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  136 (344)
                      .+.++..+++..+....  | ..++.. .|..++-+....|+.+.|...++.+.+.- +-+..+-..-.-.+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhh
Confidence            34555555555544321  1 223322 23334444445555555555555554432 2222222222222334455555


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          137 MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       137 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      |.++++.+.+.+|.|..++---+...-..|+.-+|++-+.+..+. ...|...|.-+...|...|++++|.-.+++++-.
T Consensus       105 A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  105 AIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            555555555554444444544444444445544555555554444 3335555555555555555555555555554432


Q ss_pred             cCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHC
Q 038490          217 YNVKPDGQVFASLIKGLCA---VGELSLALGVKEEMVRD  252 (344)
Q Consensus       217 ~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  252 (344)
                      .  |.+...+..+...+.-   ..+.+.+.+.|.+..+.
T Consensus       184 ~--P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  184 Q--PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             C--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            1  2223333333333322   22344455555555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.66  E-value=0.00017  Score=64.37  Aligned_cols=229  Identities=12%  Similarity=0.025  Sum_probs=159.1

Q ss_pred             hcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHH
Q 038490           12 PRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIG   91 (344)
Q Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~   91 (344)
                      ....+++.+|++...++.++.+           ....+-..-.-.+.+.|+.++|..+++......  ..|..|+..+-.
T Consensus        19 ~ld~~qfkkal~~~~kllkk~P-----------n~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~--~~D~~tLq~l~~   85 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHP-----------NALYAKVLKALSLFRLGKGDEALKLLEALYGLK--GTDDLTLQFLQN   85 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCC-----------CcHHHHHHHHHHHHHhcCchhHHHHHhhhccCC--CCchHHHHHHHH
Confidence            3456788999999888744432           122222222234578899999999988876643  237888999999


Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC----
Q 038490           92 FYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR----  167 (344)
Q Consensus        92 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  167 (344)
                      +|.+.+..++|..+|+.....  .|+......+..+|.+.+++.+-.++--++-+..+.+...+-.+++.+.+.-.    
T Consensus        86 ~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~  163 (932)
T KOG2053|consen   86 VYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENE  163 (932)
T ss_pred             HHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcc
Confidence            999999999999999999876  46688888888999999888776666555555555666777777776655422    


Q ss_pred             ------hhHHHHHHHHHhhCC-CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          168 ------LEDAWKVFDEMVKRR-LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       168 ------~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                            ..-|.+.++.+.+.+ ..-+..-...-...+...|.+++|..++..-....-..-+...-+.-+..+...+++.
T Consensus       164 ~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~  243 (932)
T KOG2053|consen  164 LLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQ  243 (932)
T ss_pred             cccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChH
Confidence                  234666777776654 1112222222233456788999999999543333333445555567778888999999


Q ss_pred             HHHHHHHHHHHCCCC
Q 038490          241 LALGVKEEMVRDKIE  255 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~  255 (344)
                      +..++-.++...+.+
T Consensus       244 ~l~~l~~~Ll~k~~D  258 (932)
T KOG2053|consen  244 ELFELSSRLLEKGND  258 (932)
T ss_pred             HHHHHHHHHHHhCCc
Confidence            999999999988754

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=7.8e-05  Score=56.62  Aligned_cols=189  Identities=12%  Similarity=0.076  Sum_probs=136.2

Q ss_pred             ccHHHHHHHHHHHHh---cC-CCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHH
Q 038490           97 RLLERALQMFDEMSS---FN-VQMTVK-FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDA  171 (344)
Q Consensus        97 ~~~~~a~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (344)
                      .+.++..+++..+..   .| ..++.. .|..++-+....|+.+.|...++.+....+.+...-..-...+-..|++++|
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A  105 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEA  105 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhH
Confidence            344555566655542   22 345543 4566677777889999999999998887754444444334445567899999


Q ss_pred             HHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          172 WKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      +++++.+.+.+ +.|..++..-+-..-..|+.-+|++.+...++.  +..|...|.-+...|...|++++|.-.++++.-
T Consensus       106 ~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  106 IEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            99999998885 446666665555666678888888888887774  488899999999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHHcC---CcCcHHHHHHHHHHcCC
Q 038490          252 DKIEMDAGIYSSLISALFKAG---RKNEFPAILKEMKERGC  289 (344)
Q Consensus       252 ~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~  289 (344)
                      ..+. ++..+..+...+.-.|   +.+-+.+.|.+..+...
T Consensus       183 ~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  183 IQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             cCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            7533 6666666776665544   45567888888887643

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.63  E-value=2.9e-06  Score=60.39  Aligned_cols=99  Identities=15%  Similarity=0.133  Sum_probs=56.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHH
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYG  196 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (344)
                      +......+...+...|++++|...++.+....+.+...+..+...+.+.|++++|..++++..+.+ +.+...+..+...
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            334455555556666666666666666655555555566666666666666666666666655543 2234444445555


Q ss_pred             HHhhchHHHHHHHHHHHHHh
Q 038490          197 LCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~  216 (344)
                      +...|++++|...++..++.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            56666666666666655543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.62  E-value=0.00022  Score=60.19  Aligned_cols=117  Identities=11%  Similarity=0.032  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEM-DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF  303 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  303 (344)
                      +|..++..-.+..-++.|..+|.+..+.+..+ ++.+.++++..++. ++.+-|.++|+--.+. ..-++.--...+.-+
T Consensus       368 v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFL  445 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHH
Confidence            46666777777888899999999999887776 77788888886664 5778899999876554 122333445667777


Q ss_pred             hccCCHHHHHHHHHHHhhCCCCCCh--hhHHHHHHHHhhcCC
Q 038490          304 CKEEDFEAAFTILDEMGDKGCKANP--ISYNVILGGLCKDGK  343 (344)
Q Consensus       304 ~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~g~  343 (344)
                      ...++-..+..+|++....++.|+.  ..|..+|.-=+.-|+
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGd  487 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGD  487 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhccc
Confidence            8888888899999999887666543  678888775555554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.60  E-value=2.3e-06  Score=74.25  Aligned_cols=169  Identities=17%  Similarity=0.123  Sum_probs=106.1

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL  168 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (344)
                      .+.+......|.+|+.+++.+....  .....|..+.+-|+..|+++.|+++|.+.        ..++-.|.+|.+.|+|
T Consensus       738 aieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~--------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA--------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc--------chhHHHHHHHhccccH
Confidence            4555667778888888888877653  23345677778888888888888888544        3466778888888888


Q ss_pred             hHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 038490          169 EDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEE  248 (344)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  248 (344)
                      +.|.++-++..  |.......|-.-..-+-+.|++.+|.++|-.+    | .|+     ..|+.|-+.|..+..+++.++
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti----~-~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI----G-EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc----c-Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            88888876654  33444555555555566777777777776442    1 333     234566666666666665544


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHH
Q 038490          249 MVRDKIEMDAGIYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       249 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      -...   .-..|...+..-+-..|+...|..-|-
T Consensus       876 ~h~d---~l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  876 HHGD---HLHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             hChh---hhhHHHHHHHHHHHhccChhHHHHHHH
Confidence            3221   122334444555555555555555443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.59  E-value=9.1e-06  Score=71.51  Aligned_cols=231  Identities=13%  Similarity=0.058  Sum_probs=154.6

Q ss_pred             hhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCC--------CCc
Q 038490           11 LPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRI--------VPK   82 (344)
Q Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~   82 (344)
                      .|.-.|+.+.|.+..+.+.                +...|..+.+.|.+..+++-|.-.+-.|....|.        .|+
T Consensus       737 fyvtiG~MD~AfksI~~Ik----------------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~  800 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK----------------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE  800 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh----------------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc
Confidence            4566788999988888774                5678999999999999999888777666543221        222


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                       .+-..........|..++|+.+|++-.+         |..|=..|-..|.|++|.++-+.-.+.  .-..||......+
T Consensus       801 -e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRi--HLr~Tyy~yA~~L  868 (1416)
T KOG3617|consen  801 -EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRI--HLRNTYYNYAKYL  868 (1416)
T ss_pred             -chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccce--ehhhhHHHHHHHH
Confidence             2233344445688999999999998776         344556677889999999887654332  2334666677777


Q ss_pred             HhhCChhHHHHHHHHHhh----------CC---------CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCH
Q 038490          163 VVSRRLEDAWKVFDEMVK----------RR---------LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDG  223 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~----------~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  223 (344)
                      -..++.+.|++.|++...          ..         -..|...|.-...-+...|+.+.|+.+|....         
T Consensus       869 ear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---------  939 (1416)
T KOG3617|consen  869 EARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK---------  939 (1416)
T ss_pred             HhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh---------
Confidence            778888888888876421          10         01133334444444445677777777776532         


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHH
Q 038490          224 QVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMK  285 (344)
Q Consensus       224 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  285 (344)
                       -|-.+++..+-.|+.++|-++-++-.      |....-.|.+.|-..|++.+|..+|.+..
T Consensus       940 -D~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  940 -DYFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             -hhhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence             24455666666777777776655432      55566678888888888888888887654

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

Probab=98.59  E-value=3e-05  Score=64.34  Aligned_cols=186  Identities=10%  Similarity=-0.006  Sum_probs=136.4

Q ss_pred             CCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHH
Q 038490           42 PFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFF  121 (344)
Q Consensus        42 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  121 (344)
                      ...|+...+...+.+......-..+..++-...+.   .-...-|...+ .+...|+.++|+..++.+++.- |-|+..+
T Consensus       269 ~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~---~~~aa~YG~A~-~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~  343 (484)
T COG4783         269 LDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR---GGLAAQYGRAL-QTYLAGQYDEALKLLQPLIAAQ-PDNPYYL  343 (484)
T ss_pred             CCCccHHHHHHHHHHHhccccccchHHHHHHHhCc---cchHHHHHHHH-HHHHhcccchHHHHHHHHHHhC-CCCHHHH
Confidence            34567777777777766665555555544443331   11222343333 4457899999999999988764 5667777


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc
Q 038490          122 NTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL  201 (344)
Q Consensus       122 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  201 (344)
                      ......+.+.++.++|.+.++++....+.....+-.+..++.+.|++.+|..+++..... .+.|+..|..|..+|...|
T Consensus       344 ~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g  422 (484)
T COG4783         344 ELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELG  422 (484)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhC
Confidence            777889999999999999999998877766777788889999999999999999998776 4558889999999999999


Q ss_pred             hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          202 RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +..++..-..+                   .+...|+++.|...+....+.
T Consensus       423 ~~~~a~~A~AE-------------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         423 NRAEALLARAE-------------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             chHHHHHHHHH-------------------HHHhCCCHHHHHHHHHHHHHh
Confidence            88887665544                   345667777777777776654

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

Probab=98.57  E-value=7.6e-05  Score=62.04  Aligned_cols=184  Identities=12%  Similarity=0.038  Sum_probs=127.2

Q ss_pred             CchHHHHHHHHhhhcCCC-CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490           62 MFDEMQQILHQLKHDTRI-VPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKEL  140 (344)
Q Consensus        62 ~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  140 (344)
                      +...+....+.+....+. .|+...+...+........-..+..++.+..+   +......--....+...|+.+.|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~---~~~~aa~YG~A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSK---RGGLAAQYGRALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhC---ccchHHHHHHHHHHHHhcccchHHHH
Confidence            455566666666544222 34555555555554443333333333333333   12222333344445677889999999


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC-HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCC
Q 038490          141 FQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT-LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNV  219 (344)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  219 (344)
                      ++.+....|.|...+......+.+.++..+|.+.++++...  .|+ ....-.+..++.+.|++.+|+.+++.....  .
T Consensus       329 l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~--~  404 (484)
T COG4783         329 LQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN--D  404 (484)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc--C
Confidence            99988877777777788888999999999999999998877  344 444556677888999999999999887653  4


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          220 KPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +.|+..|..|.++|...|+..++..-..+....
T Consensus       405 p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~  437 (484)
T COG4783         405 PEDPNGWDLLAQAYAELGNRAEALLARAEGYAL  437 (484)
T ss_pred             CCCchHHHHHHHHHHHhCchHHHHHHHHHHHHh
Confidence            677889999999999999999888888777664

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.56  E-value=1.8e-05  Score=68.95  Aligned_cols=170  Identities=15%  Similarity=0.115  Sum_probs=110.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      +.+.....+|.+|..+++.+.+.. ....-|..+...|...|+++.|+++|-+.-         .++-.|..|.+.|+|+
T Consensus       739 ieaai~akew~kai~ildniqdqk-~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK-TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc-cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHH
Confidence            334455667888888887776543 233457777888888888888888886531         2455667788888888


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          205 EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      +|.++-.+.+   |.......|.+-..-.-+.|++.+|.+++-.+.    .|+     ..|.+|-+.|..+..+++.++-
T Consensus       809 da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  809 DAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            8888776643   444555666666666777888888887764443    233     3467788888888888877764


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          285 KERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       285 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      ....   -..|...+..-+-..|+...|..-|-+.
T Consensus       877 h~d~---l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  877 HGDH---LHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             Chhh---hhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            3321   1234455555566666666666555443

>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=98.54  E-value=3.3e-06  Score=70.19  Aligned_cols=123  Identities=11%  Similarity=0.060  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV  164 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (344)
                      ....|++.+...++++.|..+|+++.+..  |+  ....+++.+...++-.+|.+++++.....+.+..........+.+
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            33445555555556666666666665543  33  223355555555555566666655555444444444444555556


Q ss_pred             hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          165 SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      .++++.|+.+.+++.... +-+-.+|..|..+|.+.|+++.|+..++.
T Consensus       247 k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs  293 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNS  293 (395)
T ss_pred             cCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhc
Confidence            666666666666655541 22333566666666666666666655554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.54  E-value=0.00034  Score=62.48  Aligned_cols=228  Identities=14%  Similarity=0.077  Sum_probs=125.5

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLD  135 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  135 (344)
                      -....+++.+|.+...++.++.+-.+-..++.++.  ..+.|+.++|..+++.....+ ..|..+...+-.+|...++.+
T Consensus        18 d~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhh
Confidence            34556777788877777777542222222232222  346777788877777766655 336777777777777888888


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc----------hHHH
Q 038490          136 RMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL----------RVDE  205 (344)
Q Consensus       136 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~  205 (344)
                      +|..++++..+..| +..-...+..+|.+.+++.+-.+.--++-+. .+-....|-.+++.....-          -..-
T Consensus        95 ~~~~~Ye~~~~~~P-~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   95 EAVHLYERANQKYP-SEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHHhhCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            88888877776543 3555556666677766665433333333332 2334445555555444321          1223


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          206 ALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKE-EMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      |.+.++.+++..|...+..-.......+...|.+++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            444455555444311122112222233345666777777663 3333322334444455566666677777777777776


Q ss_pred             HHcC
Q 038490          285 KERG  288 (344)
Q Consensus       285 ~~~~  288 (344)
                      ...|
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            6664

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.50  E-value=1.6e-05  Score=71.37  Aligned_cols=163  Identities=10%  Similarity=0.001  Sum_probs=104.0

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      +..++..|+...+...|.+-|+....-           ..-+..++....+.|++..+++.|..+.-..-+......-..
T Consensus       495 f~~LG~iYrd~~Dm~RA~kCf~KAFeL-----------Datdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~  563 (1238)
T KOG1127|consen  495 FAFLGQIYRDSDDMKRAKKCFDKAFEL-----------DATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKE  563 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcC-----------CchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHh
Confidence            455677777777777788888776332           223777788888888888888888887433332210001112


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV  164 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (344)
                      .|....-.|...++...|..-|+...+.. |.|...|..+..+|.++|.+..|.++|.+.....|.+...-.-..-.-+.
T Consensus       564 nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd  642 (1238)
T KOG1127|consen  564 NWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECD  642 (1238)
T ss_pred             hhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHH
Confidence            22334445667777888888888877766 66777888888888888888888888877766544333322223334455


Q ss_pred             hCChhHHHHHHHHHh
Q 038490          165 SRRLEDAWKVFDEMV  179 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~  179 (344)
                      .|.+.+|...+....
T Consensus       643 ~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  643 NGKYKEALDALGLII  657 (1238)
T ss_pred             hhhHHHHHHHHHHHH
Confidence            666777666666554

>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=98.48  E-value=7.9e-06  Score=68.01  Aligned_cols=122  Identities=16%  Similarity=0.190  Sum_probs=79.3

Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 038490          156 NILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA  235 (344)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  235 (344)
                      ..++..+...++++.|..+|+++.+..  |+.  ...+++.+...++-.+|++++++.++..  +.+...+......+.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHh
Confidence            344555556667777777777777663  332  3345566666666677777777766542  4455566666666777


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          236 VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       236 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      .++++.|+.+.+++.+..+. +-.+|..|..+|...|+++.|+..+..+
T Consensus       247 k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            77777777777777776433 5557777777777777777777766654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.47  E-value=3.2e-07  Score=47.92  Aligned_cols=33  Identities=39%  Similarity=0.776  Sum_probs=24.2

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC
Q 038490          295 TYNALISGFCKEEDFEAAFTILDEMGDKGCKAN  327 (344)
Q Consensus       295 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  327 (344)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.44  E-value=4.4e-07  Score=47.04  Aligned_cols=33  Identities=42%  Similarity=0.654  Sum_probs=23.5

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCC
Q 038490          294 VTYNALISGFCKEEDFEAAFTILDEMGDKGCKA  326 (344)
Q Consensus       294 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  326 (344)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            467777777777777777777777777777665

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.42  E-value=0.00065  Score=61.78  Aligned_cols=161  Identities=16%  Similarity=0.145  Sum_probs=109.0

Q ss_pred             cCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHH
Q 038490          131 CGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLK  210 (344)
Q Consensus       131 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (344)
                      .+-+++|..+|++..    .+..+.+.|+.-   -+..++|.+.-++..      .+..|+.+..+-.+.|...+|++-|
T Consensus      1061 ~~LyEEAF~ifkkf~----~n~~A~~VLie~---i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSy 1127 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFD----MNVSAIQVLIEN---IGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESY 1127 (1666)
T ss_pred             hhHHHHHHHHHHHhc----ccHHHHHHHHHH---hhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHH
Confidence            344455555555443    233333333332   244455544444331      4556888888888888888888777


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCC
Q 038490          211 EDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCK  290 (344)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  290 (344)
                      -+       ..|+..|.-+++...+.|.+++..+.+....+..-.|...  +.|+-+|++.++..+.++++.       -
T Consensus      1128 ik-------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-------g 1191 (1666)
T KOG0985|consen 1128 IK-------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA-------G 1191 (1666)
T ss_pred             Hh-------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc-------C
Confidence            44       3466788888999999999999998888777765555544  478888999888877665543       4


Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          291 PNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       291 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      ||......+.+-|...|.++.|.-+|....
T Consensus      1192 pN~A~i~~vGdrcf~~~~y~aAkl~y~~vS 1221 (1666)
T KOG0985|consen 1192 PNVANIQQVGDRCFEEKMYEAAKLLYSNVS 1221 (1666)
T ss_pred             CCchhHHHHhHHHhhhhhhHHHHHHHHHhh
Confidence            788888888888888999988888776543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.39  E-value=7e-07  Score=46.60  Aligned_cols=33  Identities=39%  Similarity=0.769  Sum_probs=27.0

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT  186 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  186 (344)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            678888888888888888888888888888776

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.38  E-value=2.5e-05  Score=56.24  Aligned_cols=127  Identities=15%  Similarity=0.167  Sum_probs=71.5

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHH
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDA--GIYSSLIS  266 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~  266 (344)
                      |..++..+ ..++...+...++.+....+-.+ .....-.+...+...|++++|...|+.+......++.  .....|..
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~   93 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLAR   93 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHH
Confidence            44444333 36666666666666655431111 1222333445666677777777777777766533221  23334566


Q ss_pred             HHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          267 ALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       267 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      .+...|++++|+..++......  .....+......+.+.|++++|...|++.
T Consensus        94 ~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   94 ILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6677777777777776543322  23344555566777777777777777653

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.38  E-value=3.1e-05  Score=55.73  Aligned_cols=125  Identities=12%  Similarity=0.045  Sum_probs=71.2

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc---hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH--HHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK---EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV--KFFNT  123 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  123 (344)
                      .|..++..+ ..++...+...++.+....  +.+   ....-.+...+...|++++|...|+........++.  .....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            344444444 3666777777777776642  222   122333456666777777777777777765422221  23344


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHH
Q 038490          124 LLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDE  177 (344)
Q Consensus       124 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (344)
                      |..++...|++++|+..++.... .......+.....+|.+.|++++|...|+.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~-~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPD-EAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccC-cchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55666667777777777655322 113334455566667777777777776665

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.34  E-value=6.6e-06  Score=68.80  Aligned_cols=126  Identities=13%  Similarity=0.069  Sum_probs=78.8

Q ss_pred             CCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 038490          181 RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN-VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAG  259 (344)
Q Consensus       181 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  259 (344)
                      .+.+.+......++..+....+.+.+..++.+...... ...-..|..++++.|.+.|..+.+..+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            34455666666666666666677777776666433211 11122344577777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 038490          260 IYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKE  306 (344)
Q Consensus       260 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  306 (344)
                      +++.||..+.+.|++..|.++...|...+...+..|+..-+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            77777777777777777777777766665555555555555554443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.34  E-value=1e-06  Score=45.59  Aligned_cols=33  Identities=30%  Similarity=0.649  Sum_probs=24.7

Q ss_pred             ccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCc
Q 038490          153 CSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP  185 (344)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  185 (344)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            467777777777777777777777777777765

>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=98.32  E-value=1.8e-05  Score=52.05  Aligned_cols=91  Identities=13%  Similarity=0.097  Sum_probs=39.1

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 038490           51 DLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT  130 (344)
Q Consensus        51 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  130 (344)
                      ..+...+...|++++|...++...+..  +.+...+..+...+...+++++|.+.++...+.. +.+..++..+...+..
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD--PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            334444444455555555554444321  2222333444444444444444444444444433 2222334444444444


Q ss_pred             cCChHHHHHHHHHH
Q 038490          131 CGKLDRMKELFQIM  144 (344)
Q Consensus       131 ~~~~~~a~~~~~~~  144 (344)
                      .|+++.|...+...
T Consensus        81 ~~~~~~a~~~~~~~   94 (100)
T cd00189          81 LGKYEEALEAYEKA   94 (100)
T ss_pred             HHhHHHHHHHHHHH
Confidence            44444444444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.30  E-value=0.0016  Score=55.20  Aligned_cols=131  Identities=9%  Similarity=0.039  Sum_probs=104.4

Q ss_pred             hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 038490          188 VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLIS  266 (344)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  266 (344)
                      .+|...|....+..-...|..+|.++.+. +..+ ++.+.++++..+| .++.+-|.++|+--.+.- .-++.--...+.
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf-~d~p~yv~~Yld  443 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF-GDSPEYVLKYLD  443 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc-CCChHHHHHHHH
Confidence            35666777777888889999999996554 4455 7888889998775 578899999999877653 224455567888


Q ss_pred             HHHHcCCcCcHHHHHHHHHHcCCCCC--hhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          267 ALFKAGRKNEFPAILKEMKERGCKPN--SVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       267 ~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .+...++-..+..+|++....++.|+  ...|..++.--..-|+...+.++-+++..
T Consensus       444 fL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  444 FLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            89999999999999999998866554  47899999999999999999998887764

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.28  E-value=3.9e-05  Score=64.33  Aligned_cols=120  Identities=10%  Similarity=0.107  Sum_probs=72.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC---CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHH
Q 038490          115 QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS---PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFG  191 (344)
Q Consensus       115 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  191 (344)
                      +.+......+++.+....+.+.+..++.+.+....   .-..|..++++.|.+.|..+.++.++..=...|+-||..+++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            44445555566666666666666666666655422   224455567777777777777777777666667777777777


Q ss_pred             HHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 038490          192 TLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA  235 (344)
Q Consensus       192 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  235 (344)
                      .+|+.+.+.|++..|.++...|+.+. ...+..++...+.+|.+
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe-~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQE-EFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhh-ccCCchHHHHHHHHHHH
Confidence            77777777777777777766665542 23344444444444433

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 [].

>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=98.28  E-value=2.6e-05  Score=51.29  Aligned_cols=96  Identities=14%  Similarity=0.184  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV  164 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (344)
                      ++..+...+...|++++|...++...+.. +.+...+..+..++...++++.|...++......+.+..++..+...+..
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHH
Confidence            35567778888999999999999998875 45557788889999999999999999999988777666788899999999


Q ss_pred             hCChhHHHHHHHHHhhC
Q 038490          165 SRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~~  181 (344)
                      .|+++.|...+....+.
T Consensus        81 ~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          81 LGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHhHHHHHHHHHHHHcc
Confidence            99999999999988754

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.26  E-value=2.6e-05  Score=51.35  Aligned_cols=76  Identities=25%  Similarity=0.454  Sum_probs=45.6

Q ss_pred             HHHHHHcCCcCcHHHHHHHHHHcCC-CCChhhHHHHHHHHhccC--------CHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 038490          265 ISALFKAGRKNEFPAILKEMKERGC-KPNSVTYNALISGFCKEE--------DFEAAFTILDEMGDKGCKANPISYNVIL  335 (344)
Q Consensus       265 ~~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~p~~~~~~~ll  335 (344)
                      |..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ..-..+.+|+.|...+++|+..||+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3334444556666666666666665 556666666655544322        2334566777777777777777777777


Q ss_pred             HHHhh
Q 038490          336 GGLCK  340 (344)
Q Consensus       336 ~~~~~  340 (344)
                      ..+.+
T Consensus       112 ~~Llk  116 (120)
T PF08579_consen  112 GSLLK  116 (120)
T ss_pred             HHHHH
Confidence            76654

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 [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.21  E-value=0.00013  Score=58.72  Aligned_cols=129  Identities=11%  Similarity=0.079  Sum_probs=55.0

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh-cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR-ARLLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      +|-.++....+.+..+.|..+|.+..+..  ..+..+|......-.. .++.+.|.++|+...+.- +.+...|...++.
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            34445555555555555555555554321  1122222222222112 333444555555554432 3444445555555


Q ss_pred             HHhcCChHHHHHHHHHHhccCCC---CcccHHHHHHHHHhhCChhHHHHHHHHHhh
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSP---DACSYNILIHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      +...++.+.|..+|++.....+.   ....|...+..=.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555443221   123444444444445555555554444443

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.20  E-value=8.7e-05  Score=51.30  Aligned_cols=102  Identities=11%  Similarity=-0.053  Sum_probs=52.8

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCC-CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC--CCHHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRI-VPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQ--MTVKFFNTLLN  126 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~  126 (344)
                      +...+..+.+.|++++|.+.|..+.....- +.....+..+..++.+.|+++.|.+.|+.+......  ....++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            444555566666666666666666543210 001234444555666666666666666665543211  11334555555


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCC
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPD  151 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~  151 (344)
                      ++...|+.+.|...++.+....+.+
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~  109 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGS  109 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCC
Confidence            5555666666666666555544433

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.18  E-value=0.00012  Score=50.61  Aligned_cols=95  Identities=15%  Similarity=0.036  Sum_probs=49.0

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCC---CcccHHHHH
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMT---VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSP---DACSYNILI  159 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~  159 (344)
                      +..+...+.+.|++++|.+.|+.+.+.. +.+   ...+..+..++.+.|+++.|...++.+....+.   ....+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKY-PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3444555555666666666666655432 111   234444555555556666666666555543321   123444555


Q ss_pred             HHHHhhCChhHHHHHHHHHhhC
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      .++.+.|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555555555555555555554

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.16  E-value=0.00047  Score=62.45  Aligned_cols=180  Identities=12%  Similarity=0.006  Sum_probs=123.7

Q ss_pred             chHHHHHHHHhhhcCCCCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490           63 FDEMQQILHQLKHDTRIVPK-EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELF  141 (344)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  141 (344)
                      ...|...|-+..+.   .|+ ...|..|...|....+...|.+.|+..-+.+ +.+..........|++..+++.|..+.
T Consensus       474 ~~~al~ali~alrl---d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  474 SALALHALIRALRL---DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             HHHHHHHHHHHHhc---ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHH
Confidence            45555555444432   233 4567888888888888889999999888776 667778888889999999999998885


Q ss_pred             HHHhccCCC--CcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCC
Q 038490          142 QIMEKYVSP--DACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNV  219 (344)
Q Consensus       142 ~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  219 (344)
                      -...+..+.  -...|....-.|.+.++...|...|+......+. |...|..+..+|..+|++..|.++|.++...   
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L---  625 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL---  625 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc---
Confidence            444443331  1222333444567778888888888887776433 7778888889999999999999999876432   


Q ss_pred             CCCHHHHHH--HHHHHHhcCChHHHHHHHHHHHH
Q 038490          220 KPDGQVFAS--LIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       220 ~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      .|+. +|..  ..-..+..|.+.+|...+..+..
T Consensus       626 rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  626 RPLS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4432 2222  22234567888888888877654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.16  E-value=7.6e-05  Score=53.00  Aligned_cols=97  Identities=6%  Similarity=-0.021  Sum_probs=70.9

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ...-.+...+...|++++|.++|+.+...+ +-+..-|..|.-++-..|++++|...|.......+.++..+..+..++.
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            334445555667788888888888777765 5566667777777777788888888888777777777777777777888


Q ss_pred             hhCChhHHHHHHHHHhhC
Q 038490          164 VSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~  181 (344)
                      ..|+.+.|.+.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            888888888777776554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.15  E-value=5.7e-05  Score=60.78  Aligned_cols=131  Identities=11%  Similarity=0.120  Sum_probs=97.4

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT-CGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|..+|+...+..+.+...|...+..+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            467888888888888999999999988654 4455566665555333 56677799999998887778888888888888


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCH---hhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTL---VTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      .+.|+.+.|..+|++.... +.++.   ..|...+..-.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8999999999999998876 33332   47778887778888888888888886654

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.15  E-value=8.3e-06  Score=52.48  Aligned_cols=82  Identities=12%  Similarity=0.166  Sum_probs=41.3

Q ss_pred             cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490           60 AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKE  139 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  139 (344)
                      .|+++.|+.+++++.......++...+..+..++.+.|++++|..+++. .+.+ +.+....-.+..++.+.|++++|..
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3556666666666665421111233344456666666666666666665 2222 1222333344566666666666666


Q ss_pred             HHHH
Q 038490          140 LFQI  143 (344)
Q Consensus       140 ~~~~  143 (344)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6553

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.15  E-value=0.00019  Score=53.30  Aligned_cols=92  Identities=8%  Similarity=-0.028  Sum_probs=68.4

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT--VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      ...+..+...+...|++++|...|++..+.+..+.  ...+..+..++.+.|++++|...+++.....+.+...+..+..
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            34567777788888999999999998886542222  4577888888888999999999998888776666677777777


Q ss_pred             HHHhhCChhHHHHH
Q 038490          161 GCVVSRRLEDAWKV  174 (344)
Q Consensus       161 ~~~~~~~~~~a~~~  174 (344)
                      .+...|+...+..-
T Consensus       115 ~~~~~g~~~~a~~~  128 (172)
T PRK02603        115 IYHKRGEKAEEAGD  128 (172)
T ss_pred             HHHHcCChHhHhhC
Confidence            77777775554433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.14  E-value=0.0002  Score=53.28  Aligned_cols=87  Identities=15%  Similarity=0.090  Sum_probs=49.0

Q ss_pred             hHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038490          189 TFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISA  267 (344)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  267 (344)
                      .+..+...+...|++++|...|++.++...-.++ ...+..+..++.+.|++++|...+++..+..+. +...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            3445555566667777777777666543211121 345566666666666777776666666665332 45555555556


Q ss_pred             HHHcCCcCc
Q 038490          268 LFKAGRKNE  276 (344)
Q Consensus       268 ~~~~g~~~~  276 (344)
                      +...|+...
T Consensus       116 ~~~~g~~~~  124 (172)
T PRK02603        116 YHKRGEKAE  124 (172)
T ss_pred             HHHcCChHh
Confidence            655555433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.14  E-value=0.00031  Score=49.95  Aligned_cols=102  Identities=11%  Similarity=0.045  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLC  198 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  198 (344)
                      ...-.+...+...|++++|..+|+.+....+.+..-|-.|..++-..|++++|+..|......++ -|+..+-.+..++.
T Consensus        36 ~~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         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHH
Confidence            34445555667788899999999888888777888888888888888999999999988887754 36677777777888


Q ss_pred             hhchHHHHHHHHHHHHHhcCCCC
Q 038490          199 LELRVDEALKLKEDIMRVYNVKP  221 (344)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~~~~~  221 (344)
                      ..|+.+.|.+-|+..+...+-.|
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHhccCh
Confidence            88898888888888776654343

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.14  E-value=5.2e-06  Score=53.42  Aligned_cols=81  Identities=16%  Similarity=0.210  Sum_probs=46.9

Q ss_pred             cccHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHH
Q 038490           96 ARLLERALQMFDEMSSFNVQ-MTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus        96 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      .|+++.|+.+++++.+.... ++...+..+..++.+.|++++|..+++. ....+.+......+..++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            46677777777777765421 1334444566777777777777777766 222223334444556667777777777776


Q ss_pred             HHH
Q 038490          175 FDE  177 (344)
Q Consensus       175 ~~~  177 (344)
                      |++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.14  E-value=0.00011  Score=61.44  Aligned_cols=97  Identities=6%  Similarity=-0.052  Sum_probs=61.2

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG  132 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  132 (344)
                      -...+...|++++|++.|++..+..  +.+...|..+..++...|++++|+..++.+++.. +.+...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            3445556667777777777766542  3345556666666667777777777777766654 445556666666666777


Q ss_pred             ChHHHHHHHHHHhccCCCCc
Q 038490          133 KLDRMKELFQIMEKYVSPDA  152 (344)
Q Consensus       133 ~~~~a~~~~~~~~~~~~~~~  152 (344)
                      +++.|...|+......+.+.
T Consensus        85 ~~~eA~~~~~~al~l~P~~~  104 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDS  104 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCH
Confidence            77777777766666554333

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.13  E-value=8.3e-05  Score=55.08  Aligned_cols=93  Identities=17%  Similarity=0.024  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEM--DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISG  302 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  302 (344)
                      .+..+...+...|++++|...++........+  ...++..+...+...|++++|+..+++....... ...++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            34444444445555555555555554432221  1234555555555555555555555555443211 22333333333


Q ss_pred             Hh-------ccCCHHHHHHHHHH
Q 038490          303 FC-------KEEDFEAAFTILDE  318 (344)
Q Consensus       303 ~~-------~~~~~~~a~~~~~~  318 (344)
                      +.       ..|+++.|...+++
T Consensus       116 ~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        116 CHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHhhHHHHHcccHHHHHHHHHH
Confidence            33       56666655444443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.12  E-value=4.6e-06  Score=42.03  Aligned_cols=30  Identities=53%  Similarity=1.026  Sum_probs=21.5

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHhhCCC
Q 038490          295 TYNALISGFCKEEDFEAAFTILDEMGDKGC  324 (344)
Q Consensus       295 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  324 (344)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            577777777777777777777777776653

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.12  E-value=0.00011  Score=61.45  Aligned_cols=101  Identities=13%  Similarity=0.110  Sum_probs=80.4

Q ss_pred             HHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 038490          194 IYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGR  273 (344)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  273 (344)
                      ...+...|++++|+..|.++++..  +.+...|..+..++.+.|++++|+..++++...... +...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCC
Confidence            455677889999999999988753  456778888888899999999999999999887654 77788888899999999


Q ss_pred             cCcHHHHHHHHHHcCCCCChhhHHHH
Q 038490          274 KNEFPAILKEMKERGCKPNSVTYNAL  299 (344)
Q Consensus       274 ~~~a~~~~~~~~~~~~~p~~~~~~~l  299 (344)
                      +++|+..|++..+.+  |+.......
T Consensus        86 ~~eA~~~~~~al~l~--P~~~~~~~~  109 (356)
T PLN03088         86 YQTAKAALEKGASLA--PGDSRFTKL  109 (356)
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHH
Confidence            999999999988864  444444333

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.09  E-value=9.3e-05  Score=48.81  Aligned_cols=78  Identities=15%  Similarity=0.274  Sum_probs=56.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCC--------cCcHHHHHHHHHHcCCCCChhhHHH
Q 038490          228 SLIKGLCAVGELSLALGVKEEMVRDKI-EMDAGIYSSLISALFKAGR--------KNEFPAILKEMKERGCKPNSVTYNA  298 (344)
Q Consensus       228 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~--------~~~a~~~~~~~~~~~~~p~~~~~~~  298 (344)
                      ..|..+...+++.....+|+.+.+.|+ .|+..+|+.++.+..+..-        +-+.+.+++.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            344445555777777788888888877 6788888887777766432        2345677888888888888888888


Q ss_pred             HHHHHhc
Q 038490          299 LISGFCK  305 (344)
Q Consensus       299 l~~~~~~  305 (344)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8877654

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 [, , ].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.09  E-value=0.00017  Score=53.38  Aligned_cols=114  Identities=14%  Similarity=0.013  Sum_probs=73.6

Q ss_pred             chHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHhcCChHHHHHH
Q 038490           63 FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQM--TVKFFNTLLNPKLTCGKLDRMKEL  140 (344)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  140 (344)
                      +..+...+..+.+..+..-....+..+...+...|++++|+..|+........+  ...++..+..++...|++++|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444445555553322222234566777777888889999999888887653222  234777888888888888888888


Q ss_pred             HHHHhccCCCCcccHHHHHHHHH-------hhCChhHHHHHHH
Q 038490          141 FQIMEKYVSPDACSYNILIHGCV-------VSRRLEDAWKVFD  176 (344)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~~~a~~~~~  176 (344)
                      ++......+....++..+...+.       ..|+++.|...++
T Consensus        95 ~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033         95 YFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHH
Confidence            88887766555566666666666       5555554444433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.05  E-value=7.3e-06  Score=41.26  Aligned_cols=29  Identities=45%  Similarity=0.686  Sum_probs=19.8

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCC
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRR  182 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  182 (344)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56667777777777777777777766654

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.04  E-value=0.0036  Score=49.23  Aligned_cols=56  Identities=7%  Similarity=-0.005  Sum_probs=26.3

Q ss_pred             HHHHHHHcCCcCcHHHHHHHHHHc--CCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          264 LISALFKAGRKNEFPAILKEMKER--GCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       264 l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      +...|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            344455555555555555555543  11112223334445555555555555544433

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.00  E-value=0.00012  Score=54.59  Aligned_cols=88  Identities=18%  Similarity=0.291  Sum_probs=57.0

Q ss_pred             CCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----------------CcCcHH
Q 038490          220 KPDGQVFASLIKGLCAV-----GELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAG----------------RKNEFP  278 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----------------~~~~a~  278 (344)
                      ..+..+|..+++.|.+.     |..+=....++.|.+.|+.-|..+|+.|++.+=+..                +.+-|+
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            56777888888887654     566666777788888888888888888888775421                123345


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHhccC
Q 038490          279 AILKEMKERGCKPNSVTYNALISGFCKEE  307 (344)
Q Consensus       279 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  307 (344)
                      +++++|...|+-||..++..++..+.+.+
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            55555555555555555555555554444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.99  E-value=0.0058  Score=49.88  Aligned_cols=287  Identities=14%  Similarity=0.072  Sum_probs=177.3

Q ss_pred             hhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHH--HHHhcCCchHHHHHHHHhhhcCCCCCchhH--
Q 038490           10 CLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIIT--KLGRAKMFDEMQQILHQLKHDTRIVPKEII--   85 (344)
Q Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--   85 (344)
                      -+..-.|+-..|.++-.+....        +..   |..-.-.++.  +-.-.|+++.|.+-|+.|...    |....  
T Consensus        92 liAagAGda~lARkmt~~~~~l--------lss---DqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d----PEtRllG  156 (531)
T COG3898          92 LIAAGAGDASLARKMTARASKL--------LSS---DQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD----PETRLLG  156 (531)
T ss_pred             hhhhccCchHHHHHHHHHHHhh--------hhc---cchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC----hHHHHHh
Confidence            3445567888888777664321        111   3333333443  334569999999999999863    33332  


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CCcc--cHHHHHHH
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PDAC--SYNILIHG  161 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~--~~~~l~~~  161 (344)
                      +..|.-..-+.|+.+.|.++-+.....- +.-...+...+...+..|+|+.|+++++.-+....  ++..  .-..|+.+
T Consensus       157 LRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtA  235 (531)
T COG3898         157 LRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTA  235 (531)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHH
Confidence            2334444457899999999888887654 34456788889999999999999999987655432  2211  11222222


Q ss_pred             HH---hhCChhHHHHHHHHHhhCCCCcCHhhH-HHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490          162 CV---VSRRLEDAWKVFDEMVKRRLQPTLVTF-GTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG  237 (344)
Q Consensus       162 ~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  237 (344)
                      -.   -..+...|...-.+..+.  .||..-- .....++.+.|+..++-.+++.+.+.   .|.+.+....+  +.+.|
T Consensus       236 kA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY~--~ar~g  308 (531)
T COG3898         236 KAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLYV--RARSG  308 (531)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHHH--HhcCC
Confidence            11   123455555555444433  4443322 23346778899999999999887765   56655544333  34666


Q ss_pred             ChHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH-hccCCHHHHHHH
Q 038490          238 ELSLAL-GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF-CKEEDFEAAFTI  315 (344)
Q Consensus       238 ~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~~~~~~a~~~  315 (344)
                      +..... +-.+.+...... +......+..+-...|++..|..--+.....  .|....|..|.+.- +..||-.++..+
T Consensus       309 dta~dRlkRa~~L~slk~n-naes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~w  385 (531)
T COG3898         309 DTALDRLKRAKKLESLKPN-NAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQW  385 (531)
T ss_pred             CcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHH
Confidence            543221 112222223222 5667777788888889988887777666554  57777787777754 455999999998


Q ss_pred             HHHHhhC
Q 038490          316 LDEMGDK  322 (344)
Q Consensus       316 ~~~~~~~  322 (344)
                      +-+..+.
T Consensus       386 lAqav~A  392 (531)
T COG3898         386 LAQAVKA  392 (531)
T ss_pred             HHHHhcC
Confidence            8888764

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.98  E-value=0.00012  Score=57.05  Aligned_cols=100  Identities=16%  Similarity=0.161  Sum_probs=74.0

Q ss_pred             HHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                      -..+.+++.+|+..|.++++..  +.|.+.|..-..+|.+.|.++.|++-.+..+..+.. ...+|..|..+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~--P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD--PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHH
Confidence            3456788888888888877642  456677777788888888888888888877776533 5677888888888888888


Q ss_pred             cHHHHHHHHHHcCCCCChhhHHHHH
Q 038490          276 EFPAILKEMKERGCKPNSVTYNALI  300 (344)
Q Consensus       276 ~a~~~~~~~~~~~~~p~~~~~~~l~  300 (344)
                      +|++.|++..+.  .|+-.+|..=+
T Consensus       167 ~A~~aykKaLel--dP~Ne~~K~nL  189 (304)
T KOG0553|consen  167 EAIEAYKKALEL--DPDNESYKSNL  189 (304)
T ss_pred             HHHHHHHhhhcc--CCCcHHHHHHH
Confidence            888888887775  56655654433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.97  E-value=0.0009  Score=58.59  Aligned_cols=64  Identities=14%  Similarity=0.044  Sum_probs=34.9

Q ss_pred             HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 038490          187 LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK  253 (344)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  253 (344)
                      ...|..+.-.....|++++|...+++++..   .|+...|..+...+...|+.++|.+.+++....+
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            344444433344456666666666665543   2455555566666666666666666666655543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.96  E-value=0.0011  Score=53.67  Aligned_cols=132  Identities=13%  Similarity=0.148  Sum_probs=77.3

Q ss_pred             HHHHHHHHHhh-chHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-----CCHH
Q 038490          190 FGTLIYGLCLE-LRVDEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKIE-----MDAG  259 (344)
Q Consensus       190 ~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~  259 (344)
                      +..+...|... |++++|++.|++..........    ..++..+...+.+.|++++|.++|+++......     .+..
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            33444556666 7888888888876654322222    345667777888899999999999988764322     1221


Q ss_pred             -HHHHHHHHHHHcCCcCcHHHHHHHHHHcC--CCCC--hhhHHHHHHHHhc--cCCHHHHHHHHHHHhh
Q 038490          260 -IYSSLISALFKAGRKNEFPAILKEMKERG--CKPN--SVTYNALISGFCK--EEDFEAAFTILDEMGD  321 (344)
Q Consensus       260 -~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~p~--~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~  321 (344)
                       .+...+-++...||...|...+++.....  +..+  ......|+.++-.  ...+..++.-|+.+.+
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~  265 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISR  265 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCc
Confidence             23334446677788888988888887552  2211  2344556666643  2346666666666554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.95  E-value=0.0034  Score=45.73  Aligned_cols=126  Identities=16%  Similarity=0.062  Sum_probs=71.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC---CCcCHhhH
Q 038490          115 QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR---LQPTLVTF  190 (344)
Q Consensus       115 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~  190 (344)
                      .|++..-..|..+..+.|+..+|...|++...... .|....-.+.++....+++..|...++++.+..   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            45555556666666667777777776666655433 455555566666666666767766666665542   1222  23


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490          191 GTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                      ..+.+.+...|+..+|..-|+.....   -|+...-......+.+.|+..++..-
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~---ypg~~ar~~Y~e~La~qgr~~ea~aq  215 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY---YPGPQARIYYAEMLAKQGRLREANAQ  215 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh---CCCHHHHHHHHHHHHHhcchhHHHHH
Confidence            34455666666666666666665543   34443333333444556655544433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.91  E-value=0.0015  Score=57.29  Aligned_cols=134  Identities=10%  Similarity=0.050  Sum_probs=71.5

Q ss_pred             CCcccHHHHHHHHHhhC-----ChhHHHHHHHHHhhCCCCcC-HhhHHHHHHHHHhh--------chHHHHHHHHHHHHH
Q 038490          150 PDACSYNILIHGCVVSR-----RLEDAWKVFDEMVKRRLQPT-LVTFGTLIYGLCLE--------LRVDEALKLKEDIMR  215 (344)
Q Consensus       150 ~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  215 (344)
                      .+...|...+++.....     +...|..+|++..+.  .|+ ...+..+..++...        .+...+.+...+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            55566776666644322     255777777777765  233 23333322222111        122233333333222


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          216 VYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       216 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ....+.+...|..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            11123344555555555555667777777777776664  45666666677777777777777777666654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.91  E-value=0.0028  Score=52.01  Aligned_cols=276  Identities=13%  Similarity=0.018  Sum_probs=168.4

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  129 (344)
                      .......+.+..++..|+..+....+.  .+.+..-|..-+..+...+++++|.--.+.-.+.. +-........-+++.
T Consensus        52 ~k~~gn~~yk~k~Y~nal~~yt~Ai~~--~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~  128 (486)
T KOG0550|consen   52 AKEEGNAFYKQKTYGNALKNYTFAIDM--CPDNASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHL  128 (486)
T ss_pred             HHhhcchHHHHhhHHHHHHHHHHHHHh--CccchhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhh
Confidence            344455666777888888888888875  24445556666666677788887777666555432 222223344444444


Q ss_pred             hcCChHHHHHHHHH------------HhccCC-----CCcccHHHH-HHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHH
Q 038490          130 TCGKLDRMKELFQI------------MEKYVS-----PDACSYNIL-IHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFG  191 (344)
Q Consensus       130 ~~~~~~~a~~~~~~------------~~~~~~-----~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  191 (344)
                      ..++..+|.+.++.            .....+     |.-.+|..+ ..++.-.|++++|.++--..++..-   ...+.
T Consensus       129 a~~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~---~n~~a  205 (486)
T KOG0550|consen  129 ALSDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA---TNAEA  205 (486)
T ss_pred             hhHHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc---chhHH
Confidence            44554444443331            111111     112223222 3456778999999888777766531   12222


Q ss_pred             HHH--HHHHhhchHHHHHHHHHHHHHhcCCCCCHHH---HHHH----------HHHHHhcCChHHHHHHHHHHHHC---C
Q 038490          192 TLI--YGLCLELRVDEALKLKEDIMRVYNVKPDGQV---FASL----------IKGLCAVGELSLALGVKEEMVRD---K  253 (344)
Q Consensus       192 ~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l----------~~~~~~~~~~~~a~~~~~~~~~~---~  253 (344)
                      ..+  .++.-.++.+.+...|++.++.   .|+...   -...          ..-..+.|++..|.+.|.+.+..   +
T Consensus       206 l~vrg~~~yy~~~~~ka~~hf~qal~l---dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n  282 (486)
T KOG0550|consen  206 LYVRGLCLYYNDNADKAINHFQQALRL---DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSN  282 (486)
T ss_pred             HHhcccccccccchHHHHHHHhhhhcc---ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccc
Confidence            333  2345578899999999887654   343221   1111          22345789999999999999875   3


Q ss_pred             CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHH---HHHHHHhccCCHHHHHHHHHHHhhCCCCC-Chh
Q 038490          254 IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYN---ALISGFCKEEDFEAAFTILDEMGDKGCKA-NPI  329 (344)
Q Consensus       254 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~  329 (344)
                      ..++...|.....+..+.|+..+|+.-.++..+.    |.....   .-..++...++|++|.+-+++..+..-.+ ...
T Consensus       283 ~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~  358 (486)
T KOG0550|consen  283 KKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRR  358 (486)
T ss_pred             cchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHH
Confidence            4556677777788889999999999999988875    333322   22345667789999999999887653332 233


Q ss_pred             hHHHHHHHH
Q 038490          330 SYNVILGGL  338 (344)
Q Consensus       330 ~~~~ll~~~  338 (344)
                      ++.-...++
T Consensus       359 ~l~~A~~aL  367 (486)
T KOG0550|consen  359 TLREAQLAL  367 (486)
T ss_pred             HHHHHHHHH
Confidence            444443333

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.91  E-value=0.0066  Score=47.75  Aligned_cols=58  Identities=12%  Similarity=-0.004  Sum_probs=25.7

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH---HHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF---CNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      ....+.+.|++++|.+.|+.+....  +-+....   -.++.++.+.+++++|...+++..+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3334444555555555555554431  1111111   22334445555555555555555543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=0.0019  Score=50.91  Aligned_cols=113  Identities=17%  Similarity=0.112  Sum_probs=77.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---CcCcHHHHHHHHHHcCCCCChhhH
Q 038490          220 KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAG---RKNEFPAILKEMKERGCKPNSVTY  296 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~p~~~~~  296 (344)
                      +.|...|..|...|...|+.+.|..-|....+...+ ++..+..+..++....   +..++..+|+++...... |+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHH
Confidence            556777888888888888888888888887776433 6666666666655433   234677788887776433 66666


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 038490          297 NALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG  336 (344)
Q Consensus       297 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  336 (344)
                      ..|...+...|++.+|...|+.|.+.  -|....+..+|+
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            66677778888888888888888774  244444555444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.89  E-value=0.0014  Score=44.98  Aligned_cols=55  Identities=11%  Similarity=0.070  Sum_probs=23.3

Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           92 FYGRARLLERALQMFDEMSSFNVQMT--VKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        92 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      ++-..|+.++|+.+|++....|+...  ...+..+...+...|++++|..+++....
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33344444444444444444443222  12233333444444444444444444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.84  E-value=0.0029  Score=48.72  Aligned_cols=128  Identities=13%  Similarity=0.086  Sum_probs=54.5

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcC-----CCCCHHHHHHHHHH
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFN-----VQMTVKFFNTLLNP  127 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~  127 (344)
                      ++.++.-.|.+.-....++++.+.+ -+.++.....|++.--+.||.+.|...|+...+..     +.-...+.......
T Consensus       183 ~~~~llG~kEy~iS~d~~~~vi~~~-~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i  261 (366)
T KOG2796|consen  183 MANCLLGMKEYVLSVDAYHSVIKYY-PEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFL  261 (366)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHHhC-CcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhh
Confidence            3333444444444444555544431 12233444444444445555555555555443221     11111122222223


Q ss_pred             HHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      |.-.+++..|...+.++...++.++..-|.-.-+..-.|+..+|.+.++.|...
T Consensus       262 ~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  262 HLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             eecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            333444445555555544444444444444444444445555555555555444

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.83  E-value=0.0019  Score=52.31  Aligned_cols=206  Identities=12%  Similarity=0.089  Sum_probs=109.9

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcC---CCCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDT---RIVPK-EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      ...|......|...|++++|.+.|.+...-.   +-+.+ ...|.....+|.+ .++++|.+.               |.
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~---------------~~   98 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIEC---------------YE   98 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHH---------------HH
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHH---------------HH
Confidence            3346666677777888888888777754321   00000 1112222222222 233333333               44


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh-CChhHHHHHHHHHhhC----CCC-cCHhhHHHHHHH
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS-RRLEDAWKVFDEMVKR----RLQ-PTLVTFGTLIYG  196 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~  196 (344)
                      ..+..|...|++..|-..+..+              ...|... |+++.|++.|++..+.    |.. .-...+..+...
T Consensus        99 ~A~~~y~~~G~~~~aA~~~~~l--------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l  164 (282)
T PF14938_consen   99 KAIEIYREAGRFSQAAKCLKEL--------------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADL  164 (282)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHH--------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHH--------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHH
Confidence            4455566777777766655544              4555555 7888888888776542    211 112345566778


Q ss_pred             HHhhchHHHHHHHHHHHHHhcCC----CCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CCC--HHHHHHHHHH
Q 038490          197 LCLELRVDEALKLKEDIMRVYNV----KPDGQ-VFASLIKGLCAVGELSLALGVKEEMVRDKI--EMD--AGIYSSLISA  267 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~----~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~--~~~~~~l~~~  267 (344)
                      +.+.|++++|..+|+++....--    ..+.. .+-..+-++...||+..|.+.+++.....+  ..+  ......|+.+
T Consensus       165 ~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A  244 (282)
T PF14938_consen  165 YARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEA  244 (282)
T ss_dssp             HHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHH
Confidence            88999999999999987654211    11221 233344467778999999999999886532  212  2334445554


Q ss_pred             HHHcCCcCcHHHHHHH
Q 038490          268 LFKAGRKNEFPAILKE  283 (344)
Q Consensus       268 ~~~~g~~~~a~~~~~~  283 (344)
                      | +.|+.+.....+.+
T Consensus       245 ~-~~~D~e~f~~av~~  259 (282)
T PF14938_consen  245 Y-EEGDVEAFTEAVAE  259 (282)
T ss_dssp             H-HTT-CCCHHHHCHH
T ss_pred             H-HhCCHHHHHHHHHH
Confidence            4 34555544444433

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.81  E-value=0.013  Score=47.99  Aligned_cols=110  Identities=18%  Similarity=0.157  Sum_probs=82.5

Q ss_pred             HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 038490          187 LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLIS  266 (344)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  266 (344)
                      ..+.+..+.-+...|+...|.++..+.    . .|+..-|...+.+++..+++++..++...   .   -++..|..++.
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~F----k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~  245 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEF----K-VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVE  245 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHc----C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHH
Confidence            345566677777888888887776552    3 47888899999999999999987765432   1   25577899999


Q ss_pred             HHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHH
Q 038490          267 ALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILD  317 (344)
Q Consensus       267 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  317 (344)
                      +|.+.|+..+|..+..++          .+..-+..|.+.|++.+|.+.--
T Consensus       246 ~~~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999998888761          22456677888888888876543

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.78  E-value=0.00019  Score=43.42  Aligned_cols=55  Identities=11%  Similarity=0.064  Sum_probs=23.3

Q ss_pred             HHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           55 TKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      ..+.+.|++++|.+.|+.+.+..  +-+...+..+..++...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444444444444444444431  22333444444444444444444444444443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.77  E-value=0.0091  Score=45.68  Aligned_cols=178  Identities=12%  Similarity=0.025  Sum_probs=89.2

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ...+-.....+.+.|++.+|.+.|+.+.......| .....-.++.++.+.|+++.|...++..++.-..-...-+...+
T Consensus         5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~   84 (203)
T PF13525_consen    5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYM   84 (203)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHH
Confidence            44455566677788888888888888887531111 12345557778888888888888888887653111111122222


Q ss_pred             HHHHhcC-------------ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHH
Q 038490          126 NPKLTCG-------------KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGT  192 (344)
Q Consensus       126 ~~~~~~~-------------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  192 (344)
                      .+.+...             ....|...              +..++.-|=.+.-..+|...+..+.+.    =...--.
T Consensus        85 ~g~~~~~~~~~~~~~~~D~~~~~~A~~~--------------~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~  146 (203)
T PF13525_consen   85 LGLSYYKQIPGILRSDRDQTSTRKAIEE--------------FEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELY  146 (203)
T ss_dssp             HHHHHHHHHHHHH-TT---HHHHHHHHH--------------HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHH
T ss_pred             HHHHHHHhCccchhcccChHHHHHHHHH--------------HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHH
Confidence            2221111             01122222              233333333344444444444443322    0111112


Q ss_pred             HHHHHHhhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHH
Q 038490          193 LIYGLCLELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       193 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  242 (344)
                      +...|.+.|.+..|..-++.+++...-.+. ......++.++.+.|..+.+
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            455677777777777777777765321111 23445666667777766643

>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=97.75  E-value=0.00014  Score=44.53  Aligned_cols=52  Identities=10%  Similarity=0.113  Sum_probs=23.7

Q ss_pred             hcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           59 RAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        59 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      +.|++++|+++|+.+....  +-+......+..+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555555544431  223444444445555555555555555544443

...

>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=97.73  E-value=9.2e-05  Score=45.35  Aligned_cols=50  Identities=18%  Similarity=0.163  Sum_probs=21.9

Q ss_pred             cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           96 ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        96 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      .|++++|++.|+.+.... +-+..++..+..+|.+.|++++|..+++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444444444433 33444444444444444444444444444443

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=0.0029  Score=49.87  Aligned_cols=106  Identities=8%  Similarity=-0.001  Sum_probs=78.3

Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC---ChhHHHHHHHHHhhCCCCc
Q 038490          109 MSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR---RLEDAWKVFDEMVKRRLQP  185 (344)
Q Consensus       109 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~  185 (344)
                      -+..+ +-|...|..|...|...|+.+.|...|....+..+++...+..+..++....   ...++..+|+++.... +-
T Consensus       148 ~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~  225 (287)
T COG4235         148 HLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PA  225 (287)
T ss_pred             HHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-Cc
Confidence            33444 6677888888888888888888888888888877777777777776655433   3467788888887764 33


Q ss_pred             CHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          186 TLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      ++.+...+...+...|++.+|...|+.|++.
T Consensus       226 ~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         226 NIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            6666666777788888888888888887764

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.72  E-value=0.00079  Score=52.74  Aligned_cols=102  Identities=8%  Similarity=0.092  Sum_probs=77.4

Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           93 YGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        93 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      ..+.+++.+|+..|.+.++.. +-|...|..=..+|.+.|.++.|.+-.+......+....+|..|..+|...|++++|+
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHH
Confidence            456788888888888888775 5666677777788888888888888888887777777778888888888888888888


Q ss_pred             HHHHHHhhCCCCcCHhhHHHHHHHH
Q 038490          173 KVFDEMVKRRLQPTLVTFGTLIYGL  197 (344)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~l~~~~  197 (344)
                      +.|++.++.  .|+-.+|-.=+...
T Consensus       170 ~aykKaLel--dP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  170 EAYKKALEL--DPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHhhhcc--CCCcHHHHHHHHHH
Confidence            888877754  56666666555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.71  E-value=0.0032  Score=43.16  Aligned_cols=94  Identities=7%  Similarity=-0.069  Sum_probs=71.7

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc--hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC---CHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK--EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQM---TVKFFNTL  124 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l  124 (344)
                      ......++-..|+.++|+.+|++.... |....  ...+..+.+.+...|++++|..+++...... +.   +......+
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~   81 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFL   81 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHH
Confidence            345677888999999999999999886 55443  3466778899999999999999999998753 22   33344445


Q ss_pred             HHHHHhcCChHHHHHHHHHHh
Q 038490          125 LNPKLTCGKLDRMKELFQIME  145 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~  145 (344)
                      .-++...|+.++|...+-...
T Consensus        82 Al~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   82 ALALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHHHHCCCHHHHHHHHHHHH
Confidence            557778899999998876554

>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=97.71  E-value=0.0003  Score=43.17  Aligned_cols=64  Identities=11%  Similarity=0.017  Sum_probs=32.6

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcc-cHHHHHHHHHHHHh
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRAR-LLERALQMFDEMSS  111 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  111 (344)
                      +...|..+...+...|++++|+..|.+..+..  +.+...+..+..++...| ++++|++.++..++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34445555555555555555555555555432  233444555555555555 45555555555443

...

>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=97.70  E-value=0.0018  Score=48.52  Aligned_cols=116  Identities=9%  Similarity=0.066  Sum_probs=69.0

Q ss_pred             CCcccHHHHHHHHHh-----hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHH
Q 038490          150 PDACSYNILIHGCVV-----SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ  224 (344)
Q Consensus       150 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  224 (344)
                      .+..+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+.+.          
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F----------  112 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEF----------  112 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHh----------
Confidence            455666666666653     34555555666666666666666666666655432 2111 111111111          


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc-CcHHHHHHHHH
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRK-NEFPAILKEMK  285 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  285 (344)
                            .-  .-.+-+-|++++++|...|+-||..++..+++.|.+.+.. .+..++.-.|.
T Consensus       113 ------~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmp  166 (228)
T PF06239_consen  113 ------MH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMP  166 (228)
T ss_pred             ------cc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence                  00  1124567899999999999999999999999999877643 23344444443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.68  E-value=0.013  Score=44.79  Aligned_cols=45  Identities=13%  Similarity=0.157  Sum_probs=20.3

Q ss_pred             HHHHHHHcCCcCcHHHHHHHHHHcCCCCChh----hHHHHHHHHhccCCHH
Q 038490          264 LISALFKAGRKNEFPAILKEMKERGCKPNSV----TYNALISGFCKEEDFE  310 (344)
Q Consensus       264 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~  310 (344)
                      +...|.+.|.+..|..-++.+.+.  -|+..    ....++.+|.+.|..+
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~  195 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQ  195 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChH
Confidence            344555555555555555555554  12221    2234444555555544

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.68  E-value=0.00018  Score=43.55  Aligned_cols=54  Identities=9%  Similarity=0.049  Sum_probs=24.3

Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           92 FYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        92 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      .+.+.|++++|.+.|+.+.+.. +-+...+..+..++...|++++|...|+++.+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444443 23344444444444444444444444444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.62  E-value=0.0033  Score=48.45  Aligned_cols=140  Identities=13%  Similarity=0.034  Sum_probs=102.2

Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHH-----HHHH
Q 038490          155 YNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQV-----FASL  229 (344)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-----~~~l  229 (344)
                      .+.++..+.-.|.+.-.+..+.+..+...+.++.....+++.-.+.|+.+.|...|+++.+..+ ..+..+     ....
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHhhh
Confidence            4566777777888888899999988887677888888888888899999999999987654432 223222     3333


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHH
Q 038490          230 IKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNA  298 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  298 (344)
                      ...|...+++..|...+.++...+.. |+...|.-.-+..-.|+..+|++.++.|...  .|...+-++
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhh
Confidence            44556677888888888888877644 6666666666666778899999999999887  344444443

>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=97.56  E-value=0.00096  Score=40.88  Aligned_cols=62  Identities=13%  Similarity=0.104  Sum_probs=31.0

Q ss_pred             hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHH
Q 038490          188 VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG-ELSLALGVKEEMVR  251 (344)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  251 (344)
                      ..|..+...+...|++++|+..|.+.++..  +.+...+..+..++.+.| ++++|++.+++..+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            344444455555555555555555555432  223444555555555555 45555555555443

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=0.017  Score=47.62  Aligned_cols=263  Identities=11%  Similarity=-0.075  Sum_probs=156.8

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-hhHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-EIIF   86 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~   86 (344)
                      .+..+.++.++..|+..+...+..           .+-++..|..-+..+...|++++|.--.+.-.+.   +|. ....
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~-----------~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~---kd~~~k~~  120 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDM-----------CPDNASYYSNRAATLMMLGRFEEALGDARQSVRL---KDGFSKGQ  120 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHh-----------CccchhhhchhHHHHHHHHhHhhcccchhhheec---CCCccccc
Confidence            344555566777777777776332           3335666766677777777777777666544332   221 1222


Q ss_pred             HHHHHHHHhcccHHHHHHHHHH---------------HHhcCC-CCCHHHHHHH-HHHHHhcCChHHHHHHHHHHhccCC
Q 038490           87 CNVIGFYGRARLLERALQMFDE---------------MSSFNV-QMTVKFFNTL-LNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~---------------~~~~~~-~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      ...-+++...++..+|.+.++.               +..... +|.-..+..+ ..++...|+.++|..+--.+.+...
T Consensus       121 ~r~~~c~~a~~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~  200 (486)
T KOG0550|consen  121 LREGQCHLALSDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA  200 (486)
T ss_pred             cchhhhhhhhHHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc
Confidence            2333344444444444433331               111111 2323334333 3567778999999988888777554


Q ss_pred             CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHH---HH----------HHHHHhhchHHHHHHHHHHHHHh
Q 038490          150 PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFG---TL----------IYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l----------~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      .+......--.++--.++.+.+...|++.+..+  |+...-.   ..          ..-..+.|++..|.+.|.+.+..
T Consensus       201 ~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~i  278 (486)
T KOG0550|consen  201 TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNI  278 (486)
T ss_pred             chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcC
Confidence            444333333344556778888999998877653  3322211   11          12346789999999999987753


Q ss_pred             c--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          217 Y--NVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       217 ~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .  ...++...|........+.|+..+|+.--+...+.+.. -...|..-..++...+++++|.+-++...+.
T Consensus       279 dP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s-yikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  279 DPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS-YIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             CccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            2  34455667777777888999999999888888765321 2223333345666678888888888887655

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.52  E-value=0.013  Score=51.68  Aligned_cols=239  Identities=11%  Similarity=0.012  Sum_probs=126.9

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHH------HHHHHHhcccHHHHHHHHHHHHhcCCCCCH
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCN------VIGFYGRARLLERALQMFDEMSSFNVQMTV  118 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  118 (344)
                      |.+..|..+.......-.++.|...|-+...-.|++.-...-..      -...-+-.|++++|+++|-++.+++     
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD-----  764 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD-----  764 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh-----
Confidence            35666777766666666666666666665443333211110000      0111122466777777776665442     


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYG  196 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (344)
                          ..+..+.+.|+|-.+.++++.--....  .-..+|+.+...+.....|++|.+.|..-...         ...+.+
T Consensus       765 ----LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~ec  831 (1189)
T KOG2041|consen  765 ----LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQIEC  831 (1189)
T ss_pred             ----hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHHHH
Confidence                234555566666555554433211100  12345666677777777777777776653211         124455


Q ss_pred             HHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCc
Q 038490          197 LCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                      +.+...+++-+.+...      ++.+....-.+.+++...|.-++|.+.+-+..   . |.     ..+..|...+++.+
T Consensus       832 ly~le~f~~LE~la~~------Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~-pk-----aAv~tCv~LnQW~~  896 (1189)
T KOG2041|consen  832 LYRLELFGELEVLART------LPEDSELLPVMADMFTSVGMCDQAVEAYLRRS---L-PK-----AAVHTCVELNQWGE  896 (1189)
T ss_pred             HHHHHhhhhHHHHHHh------cCcccchHHHHHHHHHhhchHHHHHHHHHhcc---C-cH-----HHHHHHHHHHHHHH
Confidence            5555555554444433      24455566677778888888887776653322   1 11     34566777777777


Q ss_pred             HHHHHHHHHHcCCCCChhhH--------------HHHHHHHhccCCHHHHHHHHHHHh
Q 038490          277 FPAILKEMKERGCKPNSVTY--------------NALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       277 a~~~~~~~~~~~~~p~~~~~--------------~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      |.++-++..-    |.+.+.              ..-|..+.+.|.+-.|-+++.+|.
T Consensus       897 avelaq~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qma  950 (1189)
T KOG2041|consen  897 AVELAQRFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMA  950 (1189)
T ss_pred             HHHHHHhccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHh
Confidence            7776665322    122211              122444556676666677777775

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.52  E-value=0.037  Score=45.46  Aligned_cols=272  Identities=13%  Similarity=0.074  Sum_probs=173.4

Q ss_pred             hHHHHHHHHHh--cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHH--HhcccHHHHHHHHHHHHhcCCCCCHH--HHH
Q 038490           49 HYDLIITKLGR--AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFY--GRARLLERALQMFDEMSSFNVQMTVK--FFN  122 (344)
Q Consensus        49 ~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~  122 (344)
                      .|..|-.++..  .|+-..|.++-.+..+.  +..|...+..++.+-  .-.|+++.|.+-|+.|..   .|...  -..
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l--lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLR  158 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL--LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLR  158 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh--hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHH
Confidence            46666665544  46777788777665542  345555566665443  347999999999999986   33332  123


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC-CCcCHhh--HHHHHHHHHh
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR-LQPTLVT--FGTLIYGLCL  199 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~l~~~~~~  199 (344)
                      .|.-..-+.|+.+.|.+.-+..-..-+.-...+...+...+..|+|+.|+++++.-.... +.++..-  -..|+.+-..
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~  238 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAM  238 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHH
Confidence            333344567999999998888877666667888999999999999999999999876542 3333322  2223322111


Q ss_pred             ---hchHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          200 ---ELRVDEALKLKEDIMRVYNVKPDGQV-FASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       200 ---~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                         ..+...|...-.+..   .+.|+..- --.-..++.+.|+..++-.+++.+-+..+.|+  .+    ..|.+...-+
T Consensus       239 s~ldadp~~Ar~~A~~a~---KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia----~lY~~ar~gd  309 (531)
T COG3898         239 SLLDADPASARDDALEAN---KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IA----LLYVRARSGD  309 (531)
T ss_pred             HHhcCChHHHHHHHHHHh---hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HH----HHHHHhcCCC
Confidence               223445554444333   34555332 23345678899999999999999998855544  32    3344444445


Q ss_pred             cHHHHHHHHHHc-CCCC-ChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 038490          276 EFPAILKEMKER-GCKP-NSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG  336 (344)
Q Consensus       276 ~a~~~~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  336 (344)
                      .+..-+++.... .++| +...-..+..+-...|++..|..--+....  ..|....|..|.+
T Consensus       310 ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAd  370 (531)
T COG3898         310 TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLAD  370 (531)
T ss_pred             cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHH
Confidence            666666655432 2344 456666777788888998888776666554  3566666665544

>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=97.52  E-value=0.0026  Score=45.78  Aligned_cols=57  Identities=18%  Similarity=0.247  Sum_probs=26.4

Q ss_pred             HHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          262 SSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       262 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      ..++..+...|++++|..+.+.+....+- |...|..++.+|...|+...|.++|+++
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            33444444555555555555555444322 4445555555555555555555555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.44  E-value=0.00093  Score=54.69  Aligned_cols=271  Identities=11%  Similarity=-0.038  Sum_probs=157.6

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhh---hcCCC-CCchh
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLK---HDTRI-VPKEI   84 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~-~~~~~   84 (344)
                      +..+++.|+.+.-+.+|+...+-+       ...++.-...|..+..+|.-.+++++|++....=.   +..|- .-...
T Consensus        24 GERLck~gdcraGv~ff~aA~qvG-------TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAK   96 (639)
T KOG1130|consen   24 GERLCKMGDCRAGVDFFKAALQVG-------TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAK   96 (639)
T ss_pred             HHHHHhccchhhhHHHHHHHHHhc-------chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhcccc
Confidence            466788999999999999986655       23344445567777888888889999988643211   00010 11122


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHH----HhcCC-CCCHHHHHHHHHHHHhcCC--------------------hHHHHH
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEM----SSFNV-QMTVKFFNTLLNPKLTCGK--------------------LDRMKE  139 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~--------------------~~~a~~  139 (344)
                      ....|...+-..|.+++|+-.-.+-    .+.|- ......+-.+...|...|.                    ++.|.+
T Consensus        97 ssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~  176 (639)
T KOG1130|consen   97 SSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVK  176 (639)
T ss_pred             ccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHH
Confidence            3333444455556666665433222    22221 1122345556666655442                    233444


Q ss_pred             HHHHH----hccCC--CCcccHHHHHHHHHhhCChhHHHHHHHHHh----hCCCC-cCHhhHHHHHHHHHhhchHHHHHH
Q 038490          140 LFQIM----EKYVS--PDACSYNILIHGCVVSRRLEDAWKVFDEMV----KRRLQ-PTLVTFGTLIYGLCLELRVDEALK  208 (344)
Q Consensus       140 ~~~~~----~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  208 (344)
                      +|.+-    ...+.  ....+|..|...|.-.|+++.|+..-+.-.    +-|-+ .....+..+..++.-.|+++.|.+
T Consensus       177 fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~e  256 (639)
T KOG1130|consen  177 FYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIE  256 (639)
T ss_pred             HHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHH
Confidence            44321    12121  234456666666677788888876654422    22322 123456777788888889999988


Q ss_pred             HHHHHHHh----cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHHcCCcCcHHH
Q 038490          209 LKEDIMRV----YNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD-----KIEMDAGIYSSLISALFKAGRKNEFPA  279 (344)
Q Consensus       209 ~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~a~~  279 (344)
                      .|+..+..    ..-........+|...|.-..++++|+.++.+-+..     +..-....+..|..+|...|..++|+.
T Consensus       257 hYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~  336 (639)
T KOG1130|consen  257 HYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALY  336 (639)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHH
Confidence            88764321    112223445566777777777888888877665421     111245677888888888888888887


Q ss_pred             HHHHHHH
Q 038490          280 ILKEMKE  286 (344)
Q Consensus       280 ~~~~~~~  286 (344)
                      +.+.-.+
T Consensus       337 fae~hl~  343 (639)
T KOG1130|consen  337 FAELHLR  343 (639)
T ss_pred             HHHHHHH
Confidence            7765443

>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=97.41  E-value=0.00095  Score=48.10  Aligned_cols=71  Identities=18%  Similarity=0.272  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhh-----CCCCcCHhhH
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK-----RRLQPTLVTF  190 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  190 (344)
                      +...++..+...|+++.|..+.+.+....|.+...|..+|.+|...|+...|.++|+++..     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            3455566666777777777777777777777777777777777777777777777777643     3666666543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.40  E-value=0.0067  Score=48.19  Aligned_cols=62  Identities=11%  Similarity=-0.032  Sum_probs=25.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          226 FASLIKGLCAVGELSLALGVKEEMVRDKIE--MDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       226 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +..+..+|...|++++|...|+.+.+..+.  .....+..+...+...|+.++|..+|+.+.+.
T Consensus       183 ~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        183 NYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444444444444444444444432111  11222333333444444444444444444443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.37  E-value=0.0025  Score=52.26  Aligned_cols=264  Identities=13%  Similarity=0.004  Sum_probs=161.7

Q ss_pred             HHHHhcCCchHHHHHHHHhhhcCCCCCch----hHHHHHHHHHHhcccHHHHHHHHHH--HHhc--CC-CCCHHHHHHHH
Q 038490           55 TKLGRAKMFDEMQQILHQLKHDTRIVPKE----IIFCNVIGFYGRARLLERALQMFDE--MSSF--NV-QMTVKFFNTLL  125 (344)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~--~~-~~~~~~~~~l~  125 (344)
                      .-+++.|+......+|+...+. |. .|.    ..|..|..+|.-.+++++|+++...  ...+  |- .-.......|.
T Consensus        25 ERLck~gdcraGv~ff~aA~qv-GT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLG  102 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQV-GT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLG  102 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHh-cc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhcccccccccc
Confidence            4578999999999999999886 32 233    3466677788888899999886532  1111  10 01122333444


Q ss_pred             HHHHhcCChHHHHHHHHHH----hccCC--CCcccHHHHHHHHHhhCC--------------------hhHHHHHHHHHh
Q 038490          126 NPKLTCGKLDRMKELFQIM----EKYVS--PDACSYNILIHGCVVSRR--------------------LEDAWKVFDEMV  179 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~----~~~~~--~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~  179 (344)
                      +.+--.|.+++|.....+-    ++.+.  ....++..+...|...|+                    ++.|.+.|.+=.
T Consensus       103 NtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL  182 (639)
T KOG1130|consen  103 NTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENL  182 (639)
T ss_pred             chhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHH
Confidence            5555566777766543322    22221  233445556666654443                    233444443321


Q ss_pred             ----hCCCC-cCHhhHHHHHHHHHhhchHHHHHHHHHHHH---HhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038490          180 ----KRRLQ-PTLVTFGTLIYGLCLELRVDEALKLKEDIM---RVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       180 ----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                          +.|-. .-...|..+...|.-.|+++.|+...+.-+   ++.|-.. ....+..+..++.-.|+++.|.+.|+...
T Consensus       183 ~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl  262 (639)
T KOG1130|consen  183 ELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTL  262 (639)
T ss_pred             HHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHH
Confidence                11110 112345555566667789999987765432   2333222 34568888899999999999999988765


Q ss_pred             HC----CC-CCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH----c-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          251 RD----KI-EMDAGIYSSLISALFKAGRKNEFPAILKEMKE----R-GCKPNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       251 ~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      ..    |- .....+.-.|...|.-..++++|+..+.+-..    . ..--....+.+|..+|...|..++|+.+.+.-.
T Consensus       263 ~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  263 NLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            32    21 22445566788888888889999988775422    1 112255778899999999999999998877664

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.36  E-value=0.031  Score=40.92  Aligned_cols=128  Identities=14%  Similarity=0.071  Sum_probs=71.7

Q ss_pred             CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHHHHH
Q 038490          184 QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIE-MDAGIYS  262 (344)
Q Consensus       184 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  262 (344)
                      -|++..-..+..+....|+..+|...|++.+. .-+..|....-.+.++....+++..|...++.+.+..+. -++.+.-
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            45555555566666667777777777766543 223445556666666666667777777766666654311 0222334


Q ss_pred             HHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHH
Q 038490          263 SLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFT  314 (344)
Q Consensus       263 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  314 (344)
                      .+.+.+...|...+|..-|+.....  -|+...--.....+.++|+.+++..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            4556666667777677777766665  2333333333344555555554443

>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=97.36  E-value=0.0046  Score=42.82  Aligned_cols=53  Identities=19%  Similarity=0.177  Sum_probs=34.1

Q ss_pred             CCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490          182 RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC  234 (344)
Q Consensus       182 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  234 (344)
                      ...|+..+..+++.+|+..+++..|+++++...+..+++.+...|..|++-..
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            34566666666666666666666666666666666666666666666665443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.35  E-value=0.0017  Score=40.29  Aligned_cols=53  Identities=11%  Similarity=0.051  Sum_probs=23.9

Q ss_pred             HHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhh
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      |.+.++++.|..+++.+....|.+...+.....++.+.|++++|.+.|+...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.34  E-value=0.063  Score=44.08  Aligned_cols=85  Identities=19%  Similarity=0.206  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038490          224 QVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF  303 (344)
Q Consensus       224 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  303 (344)
                      .+.+.-+.-+...|+...|.++-.+..    -|+..-|...+.+++..++|++-..+...      +-++..|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            345555667778899888888766553    36889999999999999999888776543      12568899999999


Q ss_pred             hccCCHHHHHHHHHH
Q 038490          304 CKEEDFEAAFTILDE  318 (344)
Q Consensus       304 ~~~~~~~~a~~~~~~  318 (344)
                      .+.|...+|..+..+
T Consensus       248 ~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  248 LKYGNKKEASKYIPK  262 (319)
T ss_pred             HHCCCHHHHHHHHHh
Confidence            999999999998887

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

>PRK15331 chaperone protein SicA; Provisional

Probab=97.34  E-value=0.0061  Score=43.78  Aligned_cols=92  Identities=11%  Similarity=0.077  Sum_probs=74.0

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL  168 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (344)
                      ....+...|++++|..+|.-+...+ +-+...|..|..++-..+++++|...|...-.....|+..+--...+|...|+.
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            3444557899999999999888776 566777888888888889999999998887666666666777788888999999


Q ss_pred             hHHHHHHHHHhhC
Q 038490          169 EDAWKVFDEMVKR  181 (344)
Q Consensus       169 ~~a~~~~~~~~~~  181 (344)
                      +.|...|+...+.
T Consensus       122 ~~A~~~f~~a~~~  134 (165)
T PRK15331        122 AKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999998887764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.34  E-value=0.0059  Score=48.48  Aligned_cols=97  Identities=12%  Similarity=-0.025  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCC---cccHHHHHHHHHhhCChhHHHHHHHHHhhCCC--CcCHhhHHHHH
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPD---ACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL--QPTLVTFGTLI  194 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~  194 (344)
                      .|...+..+.+.|++++|...|+.+....|.+   ..++..+...|...|++++|...|+.+.+.-.  +.....+-.+.
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            34444444455667777777777766655432   24555666677777777777777777665411  11123333344


Q ss_pred             HHHHhhchHHHHHHHHHHHHHh
Q 038490          195 YGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      ..+...|+.++|..+|+.+++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            5556677777777777776654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.28  E-value=0.002  Score=39.91  Aligned_cols=55  Identities=9%  Similarity=0.046  Sum_probs=28.2

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      .+.+.+++++|.++++.+....  +.+...+.....++.+.|++++|.+.|+...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4455555555555555555431  233444444555555555555555555555544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.24  E-value=0.09  Score=43.76  Aligned_cols=166  Identities=14%  Similarity=0.024  Sum_probs=93.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCCC----CcccHHHHHHHHHh---hCChhHHHHHHHHHhhCCCCcCHhhHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSP----DACSYNILIHGCVV---SRRLEDAWKVFDEMVKRRLQPTLVTFG  191 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  191 (344)
                      .+...++-+|-...+++...++++.+......    ....-....-++.+   .|+.++|++++..+......+++.+|.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            34445556688888899999999988775321    22222334455566   788999999998866666677888887


Q ss_pred             HHHHHHHh---------hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-h---HHHHHHH----HHHHHCC-
Q 038490          192 TLIYGLCL---------ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE-L---SLALGVK----EEMVRDK-  253 (344)
Q Consensus       192 ~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~---~~a~~~~----~~~~~~~-  253 (344)
                      .+...|-.         ....++|+..|.+..+.   .|+...--.++..+...|. .   .+..++-    ....+.| 
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~---~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~  298 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI---EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGS  298 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC---CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcc
Confidence            77765532         22466777777665432   3433222122222222222 1   1222222    1111222 


Q ss_pred             --CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          254 --IEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       254 --~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                        ...+-..+..++.++.-.|+.++|.+..++|.+.
T Consensus       299 ~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  299 LEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence              1224445556666666777777777777777655

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=97.24  E-value=0.076  Score=42.92  Aligned_cols=168  Identities=17%  Similarity=0.137  Sum_probs=91.1

Q ss_pred             hhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcch-----hhHHHHHHHHHhcC-CchHHHHHHHHhhhc----C---
Q 038490           11 LPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNL-----LHYDLIITKLGRAK-MFDEMQQILHQLKHD----T---   77 (344)
Q Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~----~---   77 (344)
                      ...++|+.+.|..++.++.....        ...|+.     ..+..+.......+ +++.|..++++..+.    .   
T Consensus         2 ~A~~~~~~~~A~~~~~K~~~~~~--------~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~   73 (278)
T PF08631_consen    2 LAWKQGDLDLAEHMYSKAKDLLN--------SLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMD   73 (278)
T ss_pred             cchhhCCHHHHHHHHHHhhhHHh--------cCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhcc
Confidence            34578999999999999844321        111221     12222333334455 888887777765432    1   


Q ss_pred             CCCCch-----hHHHHHHHHHHhcccHH---HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC
Q 038490           78 RIVPKE-----IIFCNVIGFYGRARLLE---RALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus        78 ~~~~~~-----~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      ...|+.     .++..++.+|...+..+   +|.++++.+.... +-.+.++..-+..+.+.++.+.+.+++.+|.....
T Consensus        74 ~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~  152 (278)
T PF08631_consen   74 KLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD  152 (278)
T ss_pred             ccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc
Confidence            112222     24455666666655543   4555555554432 22344555556666667777888888887776654


Q ss_pred             CCcccHHHHHHHHHhh--CChhHHHHHHHHHhhCCCCcCH
Q 038490          150 PDACSYNILIHGCVVS--RRLEDAWKVFDEMVKRRLQPTL  187 (344)
Q Consensus       150 ~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~  187 (344)
                      -....+...+..+...  .....+...++.+....+.|..
T Consensus       153 ~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  153 HSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             cccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            3445565555555222  2334555555555544344443

It is also involved in sporulation [].

>PRK15331 chaperone protein SicA; Provisional

Probab=97.24  E-value=0.015  Score=41.77  Aligned_cols=88  Identities=9%  Similarity=-0.133  Sum_probs=59.0

Q ss_pred             HHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                      -+...|++++|..+|+-+....  +-+..-+..|..++-..+++++|...|......+.. |+..+-....++...|+.+
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHH
Confidence            3456777777777777755432  334455666666677777777777777776665543 5555666677777777777


Q ss_pred             cHHHHHHHHHH
Q 038490          276 EFPAILKEMKE  286 (344)
Q Consensus       276 ~a~~~~~~~~~  286 (344)
                      .|...|....+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            77777777666

>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=97.19  E-value=0.0089  Score=41.43  Aligned_cols=84  Identities=18%  Similarity=0.299  Sum_probs=56.5

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhh--------------cCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKH--------------DTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      |..++..+|.++++.|+.+....+++..-.              .....|+..++.+++.+|+..+++..|.++.+...+
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            456788899999999999999998876431              112346666667777777777777777777766654


Q ss_pred             -cCCCCCHHHHHHHHHHHH
Q 038490          112 -FNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus       112 -~~~~~~~~~~~~l~~~~~  129 (344)
                       -+++.+..+|..|++-..
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHH
Confidence             245555666666665433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.18  E-value=0.035  Score=46.86  Aligned_cols=68  Identities=6%  Similarity=-0.179  Sum_probs=59.4

Q ss_pred             CCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch----hHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           42 PFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE----IIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        42 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      ..+.+...|+.+..+|.+.|++++|+..|++..+.   .|+.    .+|..+..+|...|+.++|+..+++.++.
T Consensus        70 ~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         70 ADVKTAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44567889999999999999999999999998874   4664    35899999999999999999999999885

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.12  E-value=0.12  Score=43.00  Aligned_cols=169  Identities=14%  Similarity=0.100  Sum_probs=108.6

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHHh---cCChHHHHHHHHH-HhccCCCCcccH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFN---VQMTVKFFNTLLNPKLT---CGKLDRMKELFQI-MEKYVSPDACSY  155 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~-~~~~~~~~~~~~  155 (344)
                      ..+...++-.|....+++...++++.+....   +.-...+-....-++.+   .|+.++|..++.. +.....++..++
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            3445566777999999999999999998752   22234444556666777   8999999999998 555555888899


Q ss_pred             HHHHHHHHh---------hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch-H---HHHHHH---HHHHHHhcCC
Q 038490          156 NILIHGCVV---------SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR-V---DEALKL---KEDIMRVYNV  219 (344)
Q Consensus       156 ~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~---~~a~~~---~~~~~~~~~~  219 (344)
                      ..+.+.|-.         ....++|...|.+.-+.  .|+..+--.+...+...|. .   .+..++   +..+.-..|.
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~  298 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGS  298 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcc
Confidence            888877632         22367888888876654  2443322222222222222 1   122222   2222222222


Q ss_pred             ---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 038490          220 ---KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK  253 (344)
Q Consensus       220 ---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  253 (344)
                         ..+--.+..++.++.-.|+.++|.+..++|.+..
T Consensus       299 ~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  299 LEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence               2233346788889999999999999999999874

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=97.08  E-value=0.033  Score=47.92  Aligned_cols=154  Identities=16%  Similarity=0.145  Sum_probs=64.8

Q ss_pred             HHhcCCchHHHHHHH--HhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490           57 LGRAKMFDEMQQILH--QLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKL  134 (344)
Q Consensus        57 ~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  134 (344)
                      ..-.++++++.++.+  .+...  + | ....+.+++.+.+.|..+.|+++...-.            .-.....+.|++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~--i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPN--I-P-KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG------HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-H
T ss_pred             HHHcCChhhhhhhhhhhhhccc--C-C-hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCH
Confidence            344555665555543  12211  1 1 2335555566666666666655543211            112233445555


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHH
Q 038490          135 DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIM  214 (344)
Q Consensus       135 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (344)
                      +.|.++.++.     .+...|..|.....+.|+++-|++.|.+..+         +..++-.|.-.|+.+.-.++.+...
T Consensus       335 ~~A~~~a~~~-----~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  335 DIALEIAKEL-----DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHHCCCC-----STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhc-----CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH
Confidence            5555544333     2444566666666666666666665555321         2333334445555555444444433


Q ss_pred             HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 038490          215 RVYNVKPDGQVFASLIKGLCAVGELSLALGVKE  247 (344)
Q Consensus       215 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  247 (344)
                      ...    +   ++....++.-.|+.+++.+++.
T Consensus       401 ~~~----~---~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  401 ERG----D---INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HTT--------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             Hcc----C---HHHHHHHHHHcCCHHHHHHHHH
Confidence            221    1   2333333444455555554443

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.06  E-value=0.21  Score=44.74  Aligned_cols=288  Identities=13%  Similarity=0.074  Sum_probs=141.2

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCc--hHHHH-HHHHhhhcCCCCC
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMF--DEMQQ-ILHQLKHDTRIVP   81 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~~-~~~~~~~~~~~~~   81 (344)
                      ...+++.+...+.+..|+++-.++...           .......|......+.+..+.  +++.+ +-+++...  ..|
T Consensus       440 ~~~vi~Rl~~r~~Y~vaIQva~~l~~p-----------~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~--~~~  506 (829)
T KOG2280|consen  440 EEVVIDRLVDRHLYSVAIQVAKLLNLP-----------ESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK--LTP  506 (829)
T ss_pred             hhhhhHHHHhcchhHHHHHHHHHhCCc-----------cccccHHHHHHHHHHHhccCccchHHHHHHHHHhccc--CCC
Confidence            345677788889999999999888211           111245566666666655321  22222 22223221  122


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC----CCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--------
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQ----MTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--------  149 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------  149 (344)
                       ...|..+.+-....|+.+.|..+++.=.+.+-.    .+..-+...+.-....|+.+....++-.+.+.-.        
T Consensus       507 -~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l  585 (829)
T KOG2280|consen  507 -GISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTL  585 (829)
T ss_pred             -ceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHH
Confidence             345677777777889999888877643222100    0112234444555566776666666655543211        


Q ss_pred             ----CCcccHHHHHH--------HHHhhCChhHHHHHHH--HHh----hCCCCcCHhhHHHHHHHHHhhch---------
Q 038490          150 ----PDACSYNILIH--------GCVVSRRLEDAWKVFD--EMV----KRRLQPTLVTFGTLIYGLCLELR---------  202 (344)
Q Consensus       150 ----~~~~~~~~l~~--------~~~~~~~~~~a~~~~~--~~~----~~~~~~~~~~~~~l~~~~~~~~~---------  202 (344)
                          .....|.-+++        .+...++-..+...|.  ...    ..|..|+..   ....++.+...         
T Consensus       586 ~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk---~~a~~~a~sk~~s~e~ka~e  662 (829)
T KOG2280|consen  586 RNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALK---TAANAFAKSKEKSFEAKALE  662 (829)
T ss_pred             HhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHH---HHHHHHhhhhhhhhHHHHHH
Confidence                11111111111        0011111111111111  100    012222222   22223333222         


Q ss_pred             -HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHH
Q 038490          203 -VDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL  281 (344)
Q Consensus       203 -~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  281 (344)
                       ..+-+++.+.+..+.+..-...+.+--+.-+...|+..+|.++-.+..    -||-..|..-+.+++..+++++-+++-
T Consensus       663 d~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfA  738 (829)
T KOG2280|consen  663 DQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFA  738 (829)
T ss_pred             HHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHH
Confidence             122222333333333333333344445555667777777777665554    356677777777777777776655554


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          282 KEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       282 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      +.++      ++.-|.-+..+|.+.|+.++|.+++-+.
T Consensus       739 kskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  739 KSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             hccC------CCCCchhHHHHHHhcccHHHHhhhhhcc
Confidence            4432      2455666777777777777777766544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.02  E-value=0.22  Score=44.36  Aligned_cols=276  Identities=13%  Similarity=0.067  Sum_probs=144.7

Q ss_pred             cCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHH
Q 038490           15 QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYG   94 (344)
Q Consensus        15 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~   94 (344)
                      -|.+++|.+++-.+.++              |     ..|..+.+.|++-.+.++++.--....-..-...++.+...++
T Consensus       747 ~g~feeaek~yld~drr--------------D-----LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa  807 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRR--------------D-----LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFA  807 (1189)
T ss_pred             hcchhHhhhhhhccchh--------------h-----hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHH
Confidence            46677777777666211              1     2455666677777776666542211000112345677777777


Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      ....|++|.+.|..-..         -...+.++.+..++++-+.+...+.    .+....-.+..++.+.|.-++|.+.
T Consensus       808 ~~~~We~A~~yY~~~~~---------~e~~~ecly~le~f~~LE~la~~Lp----e~s~llp~~a~mf~svGMC~qAV~a  874 (1189)
T KOG2041|consen  808 EMMEWEEAAKYYSYCGD---------TENQIECLYRLELFGELEVLARTLP----EDSELLPVMADMFTSVGMCDQAVEA  874 (1189)
T ss_pred             HHHHHHHHHHHHHhccc---------hHhHHHHHHHHHhhhhHHHHHHhcC----cccchHHHHHHHHHhhchHHHHHHH
Confidence            77777777777765332         1234555555555555555554443    4556666778888888888888777


Q ss_pred             HHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHH--------------HHHHHHHhcCChH
Q 038490          175 FDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFA--------------SLIKGLCAVGELS  240 (344)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--------------~l~~~~~~~~~~~  240 (344)
                      +-+.   +. |     ...+..|...++|.+|.++-++. +    -|...+.-              --|..+.+.|..-
T Consensus       875 ~Lr~---s~-p-----kaAv~tCv~LnQW~~avelaq~~-~----l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~  940 (1189)
T KOG2041|consen  875 YLRR---SL-P-----KAAVHTCVELNQWGEAVELAQRF-Q----LPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHL  940 (1189)
T ss_pred             HHhc---cC-c-----HHHHHHHHHHHHHHHHHHHHHhc-c----chhHHHHHHHHHHHHHhhcchHHHHHHhhhcccch
Confidence            6443   21 1     13445677778888887776552 1    12222111              1133344555555


Q ss_pred             HHHHHHHHHHH----CCCCCCH----HHHHH-HHHHH----------HHcCCcCcHHHHHHHHHHc-------CCCCChh
Q 038490          241 LALGVKEEMVR----DKIEMDA----GIYSS-LISAL----------FKAGRKNEFPAILKEMKER-------GCKPNSV  294 (344)
Q Consensus       241 ~a~~~~~~~~~----~~~~~~~----~~~~~-l~~~~----------~~~g~~~~a~~~~~~~~~~-------~~~p~~~  294 (344)
                      .|-+++.+|.+    .+.++-.    .+..+ |+.-+          -..|..++|..+++.....       +.---..
T Consensus       941 daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~lles~~l~~~~ri~~n~WrgAE 1020 (1189)
T KOG2041|consen  941 DAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATDLLESGLLAEQSRILENTWRGAE 1020 (1189)
T ss_pred             hHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhhhhhhhhhhhHHHHHHhhhhhHH
Confidence            55555555543    2322211    11111 11111          2346666777655543211       0111223


Q ss_pred             hHH--HHHHHHhccCCHHHHHHHHHHHhhC-CCCCChhhHHHHHH
Q 038490          295 TYN--ALISGFCKEEDFEAAFTILDEMGDK-GCKANPISYNVILG  336 (344)
Q Consensus       295 ~~~--~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~ll~  336 (344)
                      .|.  .|..-....|.++.|++.--.+.+. .+-|....|+.|.-
T Consensus      1021 AyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllAL 1065 (1189)
T KOG2041|consen 1021 AYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLAL 1065 (1189)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHH
Confidence            333  3344455678888888765555432 35566666665543

>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=96.96  E-value=0.0042  Score=39.10  Aligned_cols=65  Identities=15%  Similarity=0.102  Sum_probs=43.4

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhc---CC-CCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHD---TR-IVPK-EIIFCNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      ..+|+.+...|...|++++|++.|++..+.   .| -.|+ ..++..+..++...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456777888888888888888888776532   11 1122 34566677777788888888888777653

...

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.95  E-value=0.0072  Score=47.10  Aligned_cols=101  Identities=12%  Similarity=-0.011  Sum_probs=70.9

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch---hHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCCCHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE---IIFCNVIGFYGRARLLERALQMFDEMSSFN--VQMTVKFFN  122 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~  122 (344)
                      ..|+.-+. +.+.|++..|.+-|....+.+  +-+.   ..+--|..++...|++++|..+|..+.+.-  .+--+..+-
T Consensus       143 ~~Y~~A~~-~~ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall  219 (262)
T COG1729         143 KLYNAALD-LYKSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALL  219 (262)
T ss_pred             HHHHHHHH-HHHcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHH
Confidence            36665555 445667888888888888752  3222   334447888888888888888888887643  122245677


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCC
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPD  151 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  151 (344)
                      -|..+..+.|+.++|..+|+++.+..|.+
T Consensus       220 Klg~~~~~l~~~d~A~atl~qv~k~YP~t  248 (262)
T COG1729         220 KLGVSLGRLGNTDEACATLQQVIKRYPGT  248 (262)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHCCCC
Confidence            77778888888888888888888766533

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.92  E-value=0.22  Score=44.68  Aligned_cols=111  Identities=15%  Similarity=0.170  Sum_probs=62.2

Q ss_pred             cCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 038490          185 PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSL  264 (344)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  264 (344)
                      ....+.+--+.-+...|+..+|.++-.+. +    -||...|-.=+.+++..+++++-+++-+...      .+.-|.-.
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~F-k----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PF  750 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDF-K----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPF  750 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhc-C----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhH
Confidence            33444444555556666666666665552 1    4566666666666666666666554443332      23445566


Q ss_pred             HHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHH
Q 038490          265 ISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTI  315 (344)
Q Consensus       265 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  315 (344)
                      +.+|.+.|+.++|...+.+....     .    -...+|.+.|++.+|.++
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHH
Confidence            66777777777777766654332     1    234555555665555543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.026  Score=46.51  Aligned_cols=94  Identities=10%  Similarity=-0.016  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHH-
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLC-  198 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-  198 (344)
                      +++.+.-++.+.+++..|+...+......+.|.-...--..++...|+++.|...|+++.+.  .|+....+.=+..|. 
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQ  336 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHH
Confidence            45556666666666666666666666666666666555666666666666666666666654  333333333222222 


Q ss_pred             hhch-HHHHHHHHHHHHH
Q 038490          199 LELR-VDEALKLKEDIMR  215 (344)
Q Consensus       199 ~~~~-~~~a~~~~~~~~~  215 (344)
                      +..+ .+...++|..|..
T Consensus       337 k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  337 KIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            2222 2233555655554

>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=96.86  E-value=0.011  Score=37.17  Aligned_cols=60  Identities=22%  Similarity=0.233  Sum_probs=25.6

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhcCC----CCC-HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVYNV----KPD-GQVFASLIKGLCAVGELSLALGVKEEM  249 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  249 (344)
                      ++.+...|...|++++|+..+++.++....    .|+ ..++..+..++...|++++|++.+++.
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444444444555555555555444322100    011 233444444555555555555555444

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.85  E-value=0.3  Score=43.19  Aligned_cols=90  Identities=17%  Similarity=0.141  Sum_probs=64.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhh------
Q 038490          222 DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVT------  295 (344)
Q Consensus       222 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~------  295 (344)
                      +..+...+...+.+...+..|-++|..|-..         ..++......+++.+|..+-++..+.  .||+..      
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHh
Confidence            3445555556666777788888888887542         35677788899999999998877664  344332      


Q ss_pred             -----HHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          296 -----YNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       296 -----~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                           |...-.+|.+.|+-.+|.++++++...
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence                 334446788899999999999988643

>PRK11906 transcriptional regulator; Provisional

Probab=96.80  E-value=0.26  Score=41.99  Aligned_cols=163  Identities=14%  Similarity=0.117  Sum_probs=94.0

Q ss_pred             hhH--HHHHHHHHhc-----CCchHHHHHHHHhhhcCCCCCc-hhHHHHHHHHHH---------hcccHHHHHHHHHHHH
Q 038490           48 LHY--DLIITKLGRA-----KMFDEMQQILHQLKHDTRIVPK-EIIFCNVIGFYG---------RARLLERALQMFDEMS  110 (344)
Q Consensus        48 ~~~--~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  110 (344)
                      .+|  ..++.+....     ...+.|..+|.+........|+ ...|..+..++.         ...+..+|.++.+...
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  5555555442     2345677778777733234444 333333332221         1334556677777777


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCC-CcCHhh
Q 038490          111 SFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL-QPTLVT  189 (344)
Q Consensus       111 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~  189 (344)
                      +.+ +.|......+..+....++++.|..+|++.....|....+|........-.|+.++|.+.+++..+... +.....
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~  410 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVV  410 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHH
Confidence            776 667777777777677777788888888887777766666666666666777888888888877555421 111122


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHH
Q 038490          190 FGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      ....+..|+. ...+.|++++-+
T Consensus       411 ~~~~~~~~~~-~~~~~~~~~~~~  432 (458)
T PRK11906        411 IKECVDMYVP-NPLKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHcC-CchhhhHHHHhh
Confidence            2222334443 345566665543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.80  E-value=0.056  Score=47.19  Aligned_cols=168  Identities=17%  Similarity=0.216  Sum_probs=101.1

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCC--CcchhhHHHHHHHHHh----cCCchHHHHHHHHhhh
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPF--RYNLLHYDLIITKLGR----AKMFDEMQQILHQLKH   75 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~   75 (344)
                      |....+++..+.=.||-+.+++++....+..+      +...  ..-.-.|+.++..+..    ....+.|.++++.+.+
T Consensus       188 Pp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~------i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~  261 (468)
T PF10300_consen  188 PPKVLKLLSFVGFSGDRELGLRLLWEASKSEN------IRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK  261 (468)
T ss_pred             CHHHHHHHhhcCcCCcHHHHHHHHHHHhccCC------cchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH
Confidence            66778888888889999999999988744332      1110  0112234445544433    4567778888888887


Q ss_pred             cCCCCCchhHHH-HHHHHHHhcccHHHHHHHHHHHHhcC--C-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCC
Q 038490           76 DTRIVPKEIIFC-NVIGFYGRARLLERALQMFDEMSSFN--V-QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPD  151 (344)
Q Consensus        76 ~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~--~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  151 (344)
                      ..   |+...|. .-.+.+...|++++|++.|+......  . +.....+--+.-++.-.++|++|...|..+.+...-+
T Consensus       262 ~y---P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WS  338 (468)
T PF10300_consen  262 RY---PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWS  338 (468)
T ss_pred             hC---CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccH
Confidence            53   5554444 34566777888999998888765311  1 1122234445555666777777777777777654444


Q ss_pred             cccHHHHH-HHHHhhCCh-------hHHHHHHHHH
Q 038490          152 ACSYNILI-HGCVVSRRL-------EDAWKVFDEM  178 (344)
Q Consensus       152 ~~~~~~l~-~~~~~~~~~-------~~a~~~~~~~  178 (344)
                      ...|.-+. .++...|+.       ++|.++|.+.
T Consensus       339 ka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  339 KAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             HHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHH
Confidence            44443333 233445555       5566666554

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.78  E-value=0.18  Score=40.79  Aligned_cols=150  Identities=10%  Similarity=-0.027  Sum_probs=99.9

Q ss_pred             ccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHH----H
Q 038490           14 LQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCN----V   89 (344)
Q Consensus        14 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~----l   89 (344)
                      ..|+..+|-..++++           +..+|.|..++...=+++.-.|+.+.-...++++...  ..|+...|.-    .
T Consensus       115 ~~g~~h~a~~~wdkl-----------L~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~Gmy  181 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKL-----------LDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMY  181 (491)
T ss_pred             ccccccHHHHHHHHH-----------HHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHH
Confidence            356666666666666           4456668888888888888888888888888887764  2455433322    2


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC----CCcccHHHHHHHHHhh
Q 038490           90 IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS----PDACSYNILIHGCVVS  165 (344)
Q Consensus        90 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~l~~~~~~~  165 (344)
                      .-++...|-+++|++.-++..+.+ +.|...-..+...+-..|++.++.++..+-...-.    .-..-|--..-.+...
T Consensus       182 aFgL~E~g~y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~  260 (491)
T KOG2610|consen  182 AFGLEECGIYDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEG  260 (491)
T ss_pred             HhhHHHhccchhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcc
Confidence            333456788888888888888876 66777777777777788888888877765543211    1111222333445666


Q ss_pred             CChhHHHHHHHH
Q 038490          166 RRLEDAWKVFDE  177 (344)
Q Consensus       166 ~~~~~a~~~~~~  177 (344)
                      +.++.|+++|+.
T Consensus       261 aeye~aleIyD~  272 (491)
T KOG2610|consen  261 AEYEKALEIYDR  272 (491)
T ss_pred             cchhHHHHHHHH
Confidence            888888888876

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.73  E-value=0.014  Score=45.64  Aligned_cols=89  Identities=18%  Similarity=0.249  Sum_probs=61.2

Q ss_pred             CCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----------------CcCcHH
Q 038490          220 KPDGQVFASLIKGLCAV-----GELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAG----------------RKNEFP  278 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----------------~~~~a~  278 (344)
                      .-|..+|-..+..+...     +.++-....++.|.+.|+.-|..+|+.|++.+-+..                +-+-++
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            44666777777776543     456666677788888888888888888888865432                223456


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038490          279 AILKEMKERGCKPNSVTYNALISGFCKEED  308 (344)
Q Consensus       279 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  308 (344)
                      .++++|...|+.||..+-..|+.++.+.+.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            667777777777777777777777766654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.72  E-value=0.057  Score=44.64  Aligned_cols=123  Identities=14%  Similarity=0.026  Sum_probs=83.5

Q ss_pred             HHHhhchHHHHHHHHHHHHHhcC----C---------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 038490          196 GLCLELRVDEALKLKEDIMRVYN----V---------KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYS  262 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~----~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  262 (344)
                      .+.+.|++..|...|+++.....    .         ..-..++..+..++.+.+++..|++.-...+..+.. |+...-
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KALy  295 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKALY  295 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhHHH
Confidence            45566666666666655433211    1         112235777888899999999999999999988754 787777


Q ss_pred             HHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhh-HHHHHHHHhccCCH-HHHHHHHHHHhh
Q 038490          263 SLISALFKAGRKNEFPAILKEMKERGCKPNSVT-YNALISGFCKEEDF-EAAFTILDEMGD  321 (344)
Q Consensus       263 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~-~~a~~~~~~~~~  321 (344)
                      -=..++...|+++.|+..|+++.+.  .|+-.. -+.++..-.+.... +...++|..|..
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            7788999999999999999999886  454444 44444444444443 344678888854

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.67  E-value=0.12  Score=36.31  Aligned_cols=55  Identities=7%  Similarity=0.068  Sum_probs=25.1

Q ss_pred             hcccHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC
Q 038490           95 RARLLERALQMFDEMSSFNV--QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      +.|++++|.+.|+.+..+-.  +-...+.-.++.+|.+.++++.|...+++..+..|
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP   78 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHP   78 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            44555555555555544310  11223334444455555555555555555444444

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.67  E-value=0.19  Score=43.95  Aligned_cols=155  Identities=16%  Similarity=0.140  Sum_probs=97.9

Q ss_pred             HHhcCChHHHHHHHHHHhccCC-CCc------ccHHHHHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhHHHH-HH
Q 038490          128 KLTCGKLDRMKELFQIMEKYVS-PDA------CSYNILIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTFGTL-IY  195 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~-~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~  195 (344)
                      ..-.||-+.+++.+....+... ..+      ..|...+..++.    ..+.+.|.++++.+.++  -|+...|... .+
T Consensus       198 vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR  275 (468)
T PF10300_consen  198 VGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFEGR  275 (468)
T ss_pred             cCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            3456888888888887765433 221      123333333332    45678899999998877  4566555433 34


Q ss_pred             HHHhhchHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-HHHHcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYN--VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLIS-ALFKAG  272 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g  272 (344)
                      .+...|+.++|++.|++......  .......+--+.-++.-..++++|.+.|..+.+..- .+...|.-+.. ++...|
T Consensus       276 ~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~  354 (468)
T PF10300_consen  276 LERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAAACLLMLG  354 (468)
T ss_pred             HHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhc
Confidence            56678999999999987553111  112233455566677788999999999999987642 24555555443 344567


Q ss_pred             Cc-------CcHHHHHHHHH
Q 038490          273 RK-------NEFPAILKEMK  285 (344)
Q Consensus       273 ~~-------~~a~~~~~~~~  285 (344)
                      +.       ++|.++|.+..
T Consensus       355 ~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  355 REEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             cchhhhhhHHHHHHHHHHHH
Confidence            77       77888887654

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=96.64  E-value=0.047  Score=46.17  Aligned_cols=64  Identities=20%  Similarity=0.097  Sum_probs=45.0

Q ss_pred             CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          186 TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDG----QVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +...++.+..+|.+.|++++|+..|++.++.   .|+.    .+|..+..+|.+.|+.++|+..+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556677777777777777777777776654   3442    34677777777777777777777777764

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.59  E-value=0.37  Score=40.72  Aligned_cols=145  Identities=16%  Similarity=0.126  Sum_probs=93.0

Q ss_pred             ccHHHHHHHHHhhCChhHHHHHHHHHhhCC-CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490          153 CSYNILIHGCVVSRRLEDAWKVFDEMVKRR-LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIK  231 (344)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  231 (344)
                      .+|-..+....+..-++.|..+|-+..+.| +.+++..++++|..+ ..|+...|..+|+--+...  +.+.......+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f--~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKF--PDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhC--CCchHHHHHHHH
Confidence            345556666666677888888888888777 566777777777544 4677778888887766542  333344455566


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038490          232 GLCAVGELSLALGVKEEMVRDKIEM--DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF  303 (344)
Q Consensus       232 ~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  303 (344)
                      .+...++-+.|..+|+..... +..  -..+|..++..-..-|+...+..+=++|...  .|...+...+...|
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            667778888888888855432 111  2456777787777788887777777777664  34443333333333

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.50  E-value=0.31  Score=38.78  Aligned_cols=146  Identities=14%  Similarity=0.094  Sum_probs=82.6

Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEA  206 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  206 (344)
                      .....|++..|...|+...+..+.+...--.++.+|...|+.+.|..++..+...--.........-+..+.+.....+.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            45567778888888887777666666777777888888888888888887765442111122212223333333333333


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHcCCcCc
Q 038490          207 LKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD--KIEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                      ..+-++.-.   -+.|...-..+...+...|+.+.|.+.+-.+.+.  +.. |...-..++..+.-.|.-+.
T Consensus       223 ~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp  290 (304)
T COG3118         223 QDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPADP  290 (304)
T ss_pred             HHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCCH
Confidence            333333211   1235555556666677777777777666555543  222 44555566666665554443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.48  E-value=0.44  Score=40.30  Aligned_cols=61  Identities=13%  Similarity=0.223  Sum_probs=44.6

Q ss_pred             HHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 038490          268 LFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVIL  335 (344)
Q Consensus       268 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll  335 (344)
                      +...|++.++.-.-..+.+  +.|++.+|..+.-+.....++++|+.++.++     +|+..++++=+
T Consensus       472 Lysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~dskv  532 (549)
T PF07079_consen  472 LYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRDSKV  532 (549)
T ss_pred             HHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHHHHH
Confidence            3456666666655555554  5789999999998999999999999999865     45666655443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.40  E-value=0.4  Score=38.84  Aligned_cols=124  Identities=10%  Similarity=0.115  Sum_probs=60.7

Q ss_pred             HhcCCchHHHHHHHHhhhcC-CCCCchh-----HHHHHHHHHHhcc-cHHHHHHHHHHHHhc----C----CCCC-----
Q 038490           58 GRAKMFDEMQQILHQLKHDT-RIVPKEI-----IFCNVIGFYGRAR-LLERALQMFDEMSSF----N----VQMT-----  117 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~-----~~~~l~~~~~~~~-~~~~a~~~~~~~~~~----~----~~~~-----  117 (344)
                      .+.|+.+.|..++.+..... ...|+..     .+..+.......+ +++.|..++++..+.    +    ..++     
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            46788888988888876542 1233321     1111222223444 777776666665432    1    1111     


Q ss_pred             HHHHHHHHHHHHhcCChH---HHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          118 VKFFNTLLNPKLTCGKLD---RMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       118 ~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ..+...++.+|...+..+   +|..+++.+....+.....+..-+..+.+.++.+.+.+++.+|...
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            123444455555444432   3334444443333333444444455555555555555555555544

It is also involved in sporulation [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.36  E-value=0.1  Score=40.92  Aligned_cols=89  Identities=16%  Similarity=0.160  Sum_probs=46.5

Q ss_pred             hhCChhHHHHHHHHHhhCCCC--cCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQ--PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELS  240 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  240 (344)
                      +.|++..|...|....+....  -....+--|..++...|++++|..+|..+.+..+-.|- +..+--+..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            445566666666665554211  01112223555566666666666666665554433332 344555555555666666


Q ss_pred             HHHHHHHHHHHC
Q 038490          241 LALGVKEEMVRD  252 (344)
Q Consensus       241 ~a~~~~~~~~~~  252 (344)
                      +|..+|+++.+.
T Consensus       233 ~A~atl~qv~k~  244 (262)
T COG1729         233 EACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.38  Score=38.28  Aligned_cols=147  Identities=13%  Similarity=0.032  Sum_probs=104.2

Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHHHHHHhhCChh
Q 038490           91 GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILIHGCVVSRRLE  169 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  169 (344)
                      ......|++.+|...|....... +-+......++.+|...|+.+.|..++..+..... ........-+..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            34567899999999999998875 55567788899999999999999999998865433 12222233456666666666


Q ss_pred             HHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          170 DAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       170 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      +...+-.+.-..  +-|...-..+...+...|+.+.|...+-.+++...-..|...-..++..+.-.|.-+
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~D  289 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPAD  289 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCC
Confidence            666655555433  225555666778888999999999988888776554556666677777776666433

>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=96.32  E-value=0.06  Score=46.37  Aligned_cols=157  Identities=17%  Similarity=0.081  Sum_probs=109.3

Q ss_pred             hhhcccCCchHHhhhhc--CCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490           10 CLPRLQKDPKLALQLFK--NPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus        10 ~~~~~~~~~~~A~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      ....-.++++++.++.+  .+           .+.+  +....+.++..+.+.|..+.|+++...-..            
T Consensus       269 k~av~~~d~~~v~~~i~~~~l-----------l~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------  323 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNL-----------LPNI--PKDQGQSIARFLEKKGYPELALQFVTDPDH------------  323 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHT-----------GGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------
T ss_pred             HHHHHcCChhhhhhhhhhhhh-----------cccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------
Confidence            34455688888666554  22           1122  245588899999999999999987543222            


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                       -.....+.|+++.|.++.++      ..+...|..|.....+.|+++-|+..|++..+        +..|+-.|.-.|+
T Consensus       324 -rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d--------~~~L~lLy~~~g~  388 (443)
T PF04053_consen  324 -RFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD--------FSGLLLLYSSTGD  388 (443)
T ss_dssp             -HHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT---------HHHHHHHHHHCT-
T ss_pred             -HhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC--------ccccHHHHHHhCC
Confidence             24455688999999887654      34677999999999999999999999998864        7888889999999


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      .+...++.+....+|.      ++..+.++...|+.++..+++.+
T Consensus       389 ~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  389 REKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            9998888888877752      45556666778999999888866

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.32  E-value=0.19  Score=35.44  Aligned_cols=73  Identities=16%  Similarity=0.116  Sum_probs=40.2

Q ss_pred             HHhhchHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 038490          197 LCLELRVDEALKLKEDIMRVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALF  269 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  269 (344)
                      ..+.|++++|.+.|+.+.......+ .....-.++.+|.+.+++++|...+++.++..+..--.-|...+.+++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            3556667777666666554432222 233445566666677777777777776666654422333444444443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.32  E-value=0.45  Score=38.62  Aligned_cols=151  Identities=8%  Similarity=-0.072  Sum_probs=79.2

Q ss_pred             cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc---CCCCCHHHHHHHHHHHHhcCChHH
Q 038490           60 AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF---NVQMTVKFFNTLLNPKLTCGKLDR  136 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~  136 (344)
                      .|+..+|-..++++.+.  .+.|...+...=.+|.-.|+.+.-...++++...   ++|....+-..+.-++..+|-+++
T Consensus       116 ~g~~h~a~~~wdklL~d--~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            35555555556666553  3455555555555666666666666666666533   222222233333444555666677


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCc---CHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          137 MKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP---TLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       137 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      |++.-++..+.++.|..+-.++...+-..|+..++.+...+-.+.--..   -...|-...-.+...+.++.|+.+|++
T Consensus       194 AEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            7766666666655666666666666666666666666655433220000   011111112233445666777766654

>PRK11906 transcriptional regulator; Provisional

Probab=96.28  E-value=0.47  Score=40.50  Aligned_cols=149  Identities=11%  Similarity=0.080  Sum_probs=83.7

Q ss_pred             cHHHHHHHHHHHHh-cCCCCC-HHHHHHHHHHHHh---------cCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           98 LLERALQMFDEMSS-FNVQMT-VKFFNTLLNPKLT---------CGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        98 ~~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      ..+.|+.+|.+... ..+.|+ ...|..+..++..         ..+..+|.+.-++..+.++.|..+...+..+....+
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            45678888888872 122343 4455544444332         123455666666667766677777777777777777


Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                      +++.|..+|++....+.. ...+|......+.-.|+.++|.+.+++.++.........+....+..|+.. .++.|..++
T Consensus       353 ~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~  430 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLY  430 (458)
T ss_pred             chhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHH
Confidence            788888888877765322 233333333445557777777777777665432222223333333344333 345555555


Q ss_pred             HH
Q 038490          247 EE  248 (344)
Q Consensus       247 ~~  248 (344)
                      -+
T Consensus       431 ~~  432 (458)
T PRK11906        431 YK  432 (458)
T ss_pred             hh
Confidence            33

>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=96.26  E-value=0.28  Score=35.78  Aligned_cols=136  Identities=14%  Similarity=0.189  Sum_probs=85.9

Q ss_pred             HHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          172 WKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      .+++..+.+.+++|+...+..++..+.+.|++.....+++.     ++-+|.......+-.+.  +....+.++--+|.+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~-----~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQY-----HVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhh-----cccCCcHHHHHHHHHhH--ccChHHHHHHHHHHH
Confidence            45566667788899999999999999999987776665543     55566555444443222  233444444444443


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          252 DKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       252 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      .    -...+..++..+...|++-+|.++.+.....    +......++.+-.+.+|..--..+++-..++
T Consensus        87 R----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   87 R----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             H----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2    0113566778888999999998888775332    2233355667777777766666666555543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.22  E-value=0.022  Score=31.05  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=9.5

Q ss_pred             HHHHHHHhcCCchHHHHHHHHhhh
Q 038490           52 LIITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus        52 ~l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      .+...|.+.|++++|+++|++..+
T Consensus         6 ~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    6 ALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333334444444444444444333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.22  E-value=0.69  Score=39.79  Aligned_cols=149  Identities=13%  Similarity=0.079  Sum_probs=73.6

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMT-VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      +|.-..+..+.+.-++.-.+.++..  |+ ...|..|..  -......++.+++++..+.+....          .+...
T Consensus       174 IMq~AWRERnp~aRIkaA~eALei~--pdCAdAYILLAE--EeA~Ti~Eae~l~rqAvkAgE~~l----------g~s~~  239 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALEIN--PDCADAYILLAE--EEASTIVEAEELLRQAVKAGEASL----------GKSQF  239 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhh--hhhhHHHhhccc--ccccCHHHHHHHHHHHHHHHHHhh----------chhhh
Confidence            4444445566666666666555542  32 223332222  223456777777777654322100          00000


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKE  247 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  247 (344)
                      .+..-..++....+...|-...-..+..++.+.|+.++|++.++++++.........+...|+.++...+.+.++..++.
T Consensus       240 ~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~  319 (539)
T PF04184_consen  240 LQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLA  319 (539)
T ss_pred             hhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHH
Confidence            00000111112222222223333344555566777777777777777654322234456677777777777777777777


Q ss_pred             HHHH
Q 038490          248 EMVR  251 (344)
Q Consensus       248 ~~~~  251 (344)
                      +..+
T Consensus       320 kYdD  323 (539)
T PF04184_consen  320 KYDD  323 (539)
T ss_pred             Hhcc
Confidence            7644

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.18  E-value=0.065  Score=42.11  Aligned_cols=127  Identities=19%  Similarity=0.124  Sum_probs=86.4

Q ss_pred             CcCHhhHHHHHHHHHhh-----chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----------------ChHHH
Q 038490          184 QPTLVTFGTLIYGLCLE-----LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG----------------ELSLA  242 (344)
Q Consensus       184 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a  242 (344)
                      .-|..+|...+..+...     +.++-....++. ++++|+.-|..+|+.|+..+-+..                +-+-+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~-m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~  142 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKY-MKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCA  142 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHH-HHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHH
Confidence            44777787777766543     445555555555 567899999999999999986643                23457


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc-CcHHHHHHHHHH---cCCCCChhhHHHHHHHHhccCC-HHHHHHHHH
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALFKAGRK-NEFPAILKEMKE---RGCKPNSVTYNALISGFCKEED-FEAAFTILD  317 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~---~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~  317 (344)
                      ++++++|...|+.||-.+-..|+++|.+.+-. .+..++.-.|.+   .+.-|+....         -|+ .+-|.-.++
T Consensus       143 I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPkfkn~np~p~pr~v---------p~dp~ElA~~aL~  213 (406)
T KOG3941|consen  143 IKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPKFKNSNPYPDPRHV---------PGDPSELAGIALK  213 (406)
T ss_pred             HHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhhhccCCCCCCCCCC---------CCCHHHHHHHHHH
Confidence            89999999999999999999999999887753 244444444433   2333443321         233 445555666


Q ss_pred             HHh
Q 038490          318 EMG  320 (344)
Q Consensus       318 ~~~  320 (344)
                      .|.
T Consensus       214 ~M~  216 (406)
T KOG3941|consen  214 MMS  216 (406)
T ss_pred             HhC
Confidence            664

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.14  E-value=0.15  Score=35.03  Aligned_cols=53  Identities=15%  Similarity=0.019  Sum_probs=24.1

Q ss_pred             HHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           57 LGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        57 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      +...|+++.|++.|.+....  .+.....||.-..++.-+|+.++|+.-+++..+
T Consensus        53 laE~g~Ld~AlE~F~qal~l--~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHhccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            34444455555544444432  223344444444444444444444444444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=96.14  E-value=0.77  Score=39.59  Aligned_cols=183  Identities=11%  Similarity=0.088  Sum_probs=134.3

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHH
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILI  159 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  159 (344)
                      ..|...+.+++..+++...+.-++.+..+|...|  .+...+..++++|... .-+.-..+++++.+....+...-..|.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHH
Confidence            5567778889999999999999999999999875  5667788999999988 556778888888776666666666677


Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCc-----CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQP-----TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC  234 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  234 (344)
                      ..|-+ ++...+...|.++..+-++-     -...|..+..  .-..+.+....+...+....|...-...+..+-.-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~--~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPE--LIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHH--hccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            76666 88888888888887652220     1123443332  1245777788888887776676666777777778888


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 038490          235 AVGELSLALGVKEEMVRDKIEMDAGIYSSLISALF  269 (344)
Q Consensus       235 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  269 (344)
                      ...++.+|++++..+.+.+-+ |...-..++..+.
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~lR  250 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEK-DVWARKEIIENLR  250 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcch-hhhHHHHHHHHHH
Confidence            999999999999988877544 6655555555443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.10  E-value=0.058  Score=37.01  Aligned_cols=95  Identities=15%  Similarity=-0.042  Sum_probs=73.8

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch--hH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE--II   85 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~   85 (344)
                      -+.+++..|+.+.|++.|.+..           .-.+....+||.-..++.-.|+.++|++-+++..+-.|-+...  ..
T Consensus        49 ~~valaE~g~Ld~AlE~F~qal-----------~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa  117 (175)
T KOG4555|consen   49 KAIALAEAGDLDGALELFGQAL-----------CLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQA  117 (175)
T ss_pred             HHHHHHhccchHHHHHHHHHHH-----------HhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHH
Confidence            3556788999999999998863           2234478899999999999999999999999988765433111  23


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFN  113 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~  113 (344)
                      |..-...|...|+.+.|..-|+..-+.|
T Consensus       118 ~vQRg~lyRl~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  118 FVQRGLLYRLLGNDDAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHHHHHHhCchHHHHHhHHHHHHhC
Confidence            3344556778899999999999988877

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.03  E-value=0.73  Score=42.14  Aligned_cols=180  Identities=14%  Similarity=0.015  Sum_probs=107.9

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      +...-+.++.+..-++.|+.+-+.-...+.           .-........+.+.+.|++++|...|-+-...  +.|..
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d-----------~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~--le~s~  402 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDED-----------TLAEIHRKYGDYLYGKGDFDEATDQYIETIGF--LEPSE  402 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHH-----------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc--CChHH
Confidence            334455666777777888888766532211           02223334445566788999988888776542  34432


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                           +|.-|.+..+...-..+++.+.+.| -.+...-..|+.+|.+.++.++-.++.+.... |. -..-....+..+.
T Consensus       403 -----Vi~kfLdaq~IknLt~YLe~L~~~g-la~~dhttlLLncYiKlkd~~kL~efI~~~~~-g~-~~fd~e~al~Ilr  474 (933)
T KOG2114|consen  403 -----VIKKFLDAQRIKNLTSYLEALHKKG-LANSDHTTLLLNCYIKLKDVEKLTEFISKCDK-GE-WFFDVETALEILR  474 (933)
T ss_pred             -----HHHHhcCHHHHHHHHHHHHHHHHcc-cccchhHHHHHHHHHHhcchHHHHHHHhcCCC-cc-eeeeHHHHHHHHH
Confidence                 5666677778888888888888888 45556667888899998888887777666542 11 1112345556666


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      +.+-.++|..+-.+...     .......   .+-..+++++|++.+..
T Consensus       475 ~snyl~~a~~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  475 KSNYLDEAELLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISS  515 (933)
T ss_pred             HhChHHHHHHHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhc
Confidence            66666666555444322     1112222   23445666666666644

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.95  E-value=0.58  Score=36.54  Aligned_cols=58  Identities=16%  Similarity=0.122  Sum_probs=30.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          230 IKGLCAVGELSLALGVKEEMVRDKIE--MDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .+.|.+.|.+..|..-++.|.+.-..  -....+-.+..+|...|-.++|...-+-+...
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            44556666666666666666654111  11223444555666666666665555544443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.84  E-value=0.025  Score=30.88  Aligned_cols=27  Identities=11%  Similarity=0.178  Sum_probs=13.5

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      +..+...|.+.|++++|+++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344444555555555555555555544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.80  E-value=0.97  Score=37.99  Aligned_cols=65  Identities=15%  Similarity=0.201  Sum_probs=39.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHHcCCcCcHHHHHHHHHH
Q 038490          222 DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM---DAGIYSSLISALFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       222 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  286 (344)
                      ...++..++..+.+.|+++.|...+..+...+...   .+.+...-+...-..|+..+|+..++....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34456666677777777777777777766543211   233344445555666666777777666665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.76  E-value=0.45  Score=33.85  Aligned_cols=43  Identities=14%  Similarity=0.271  Sum_probs=23.3

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC  131 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  131 (344)
                      .++..+.+.+.......+++.+...+ ..+....+.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            34555555555566666666555554 34455555555555543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.76  E-value=0.4  Score=39.34  Aligned_cols=234  Identities=12%  Similarity=0.039  Sum_probs=141.0

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhh----hcCCCCCchh
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLK----HDTRIVPKEI   84 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~   84 (344)
                      +..+..+.+.++|+..+.+.....+        ..--...+|..+..+.++.|.+++++..--..+    +......--.
T Consensus        13 g~~Ly~s~~~~~al~~w~~~L~~l~--------~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~e   84 (518)
T KOG1941|consen   13 GLQLYQSNQTEKALQVWTKVLEKLS--------DLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLE   84 (518)
T ss_pred             HHhHhcCchHHHHHHHHHHHHHHHH--------HHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455667788888888766533321        111134567777788888888887765432211    1100011123


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc-CCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC------CCccc
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSF-NVQM---TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS------PDACS  154 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~  154 (344)
                      .|..+.+.+.+.-++.+++.+-..-... |..|   .-....++..++...+.++++++.|+...+...      .....
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            4556666666666777777666554432 1111   112344566777777889999999987654322      34567


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHhhC----CCCcCHhhHHH-----HHHHHHhhchHHHHHHHHHHHHHhcCCCCCH--
Q 038490          155 YNILIHGCVVSRRLEDAWKVFDEMVKR----RLQPTLVTFGT-----LIYGLCLELRVDEALKLKEDIMRVYNVKPDG--  223 (344)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--  223 (344)
                      +-.|-..|.+..|+++|.-+..+..+.    ++.--..-|..     +.-++...|+...|.+.-++.++..-..-|.  
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            888999999999999988776665432    22211112222     2345667788888887777765543223333  


Q ss_pred             --HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038490          224 --QVFASLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       224 --~~~~~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                        .....+.+.|...|+.+.|+.-|++..
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence              344566777888999999988877754

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.76  E-value=0.18  Score=40.12  Aligned_cols=77  Identities=18%  Similarity=0.225  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH-----cCCCCChhhHHHH
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKE-----RGCKPNSVTYNAL  299 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~~l  299 (344)
                      ++..++..+...|+.+.+...++++....+. +...|..++.+|.+.|+...|++.|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            5566777777788888888888888877644 778888888888888888888888877654     4777777776666


Q ss_pred             HHH
Q 038490          300 ISG  302 (344)
Q Consensus       300 ~~~  302 (344)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            555

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.76  E-value=0.51  Score=43.06  Aligned_cols=176  Identities=11%  Similarity=0.105  Sum_probs=117.6

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHH----HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNV----IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ...-+..+.+...++-|..+.+.-.      .+..+...+    .+.+.+.|++++|...|-+.+..- .|     ..++
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~------~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l-e~-----s~Vi  404 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQH------LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFL-EP-----SEVI  404 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcC------CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC-Ch-----HHHH
Confidence            4556777788888888888765532      233333333    444567899999999887766431 33     2345


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      .-|........-..+++.+.+.+..+...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            555666667777788888888888888888999999999999999887777654 3322  1123456677777888888


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490          206 ALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEM  249 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  249 (344)
                      |..+-...      ..+......++   -..+++++|++.+..+
T Consensus       482 a~~LA~k~------~~he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  482 AELLATKF------KKHEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHh------ccCHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            87766542      12333444443   3667888888877654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.75  E-value=0.4  Score=33.16  Aligned_cols=139  Identities=10%  Similarity=0.115  Sum_probs=73.5

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      -.|.+++..++..+....   .+..-+|-+|--....-+-+...++++.+-..  -|..          ..|++......
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki--FDis----------~C~NlKrVi~C   78 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI--FDIS----------KCGNLKRVIEC   78 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG--S-GG----------G-S-THHHHHH
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh--cCch----------hhcchHHHHHH
Confidence            356667777777776653   34444555554444444445555555554332  2222          22333333333


Q ss_pred             HHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 038490          175 FDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI  254 (344)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  254 (344)
                      +-.+     .-+...+...+......|+-++-.+++..+++  .-.+++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        79 ~~~~-----n~~se~vD~ALd~lv~~~kkDqLdki~~~l~k--n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   79 YAKR-----NKLSEYVDLALDILVKQGKKDQLDKIYNELKK--NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHT-----T---HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHhh--ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3222     11334455566777778888888888877664  2356777777788888888888888888888887776


Q ss_pred             C
Q 038490          255 E  255 (344)
Q Consensus       255 ~  255 (344)
                      +
T Consensus       152 k  152 (161)
T PF09205_consen  152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.55  E-value=0.18  Score=44.50  Aligned_cols=85  Identities=14%  Similarity=0.112  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHh----------
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLV----------  188 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------  188 (344)
                      .+...+..-+.+...+..|.++|.+|-+        ...++......++|++|..+-+...+.  .||+.          
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD--------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~  817 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGD--------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAEN  817 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhcc--------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhh
Confidence            3444444555556667777777776643        344566677778888888777765443  33332          


Q ss_pred             -hHHHHHHHHHhhchHHHHHHHHHHH
Q 038490          189 -TFGTLIYGLCLELRVDEALKLKEDI  213 (344)
Q Consensus       189 -~~~~l~~~~~~~~~~~~a~~~~~~~  213 (344)
                       -|...-.+|.+.|+-.+|.++++++
T Consensus       818 DrFeEAqkAfhkAGr~~EA~~vLeQL  843 (1081)
T KOG1538|consen  818 DRFEEAQKAFHKAGRQREAVQVLEQL  843 (1081)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHHHh
Confidence             1222335666667777777777664

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.51  E-value=0.21  Score=39.79  Aligned_cols=59  Identities=19%  Similarity=0.345  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHh
Q 038490          121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMV  179 (344)
Q Consensus       121 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (344)
                      +..++..+...|+.+.+...++++....+-+...|..+|.+|.+.|+...|+..|+++.
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            33344444455555555555555555555555555555555555555555555555543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.49  E-value=0.86  Score=35.20  Aligned_cols=224  Identities=16%  Similarity=0.073  Sum_probs=117.4

Q ss_pred             CCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490           61 KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF-NVQMTVKFFNTLLNPKLTCGKLDRMKE  139 (344)
Q Consensus        61 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  139 (344)
                      +....+...+...............+......+...+.+..+...+...... ........+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4455555555555443100012455566666666777777777777666542 223444555566666666666777777


Q ss_pred             HHHHHhccCCCCcccHHHHHH-HHHhhCChhHHHHHHHHHhhCCC--CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          140 LFQIMEKYVSPDACSYNILIH-GCVVSRRLEDAWKVFDEMVKRRL--QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      .+.........+......... .+...|+++.+...+.+......  ......+......+...++.+.+...+......
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            777666544433233333333 56677777777777777644211  012222222333344556666666666665543


Q ss_pred             cCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          217 YNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       217 ~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .  .. ....+..+...+...++++.+...+......... ....+..+...+...+..+++...+......
T Consensus       197 ~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         197 N--PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             C--cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2  22 2455555555666666666666666666654322 1233333333333445555555555555544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.42  E-value=0.92  Score=35.17  Aligned_cols=30  Identities=17%  Similarity=0.235  Sum_probs=24.3

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhh
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      -...|.--..+|....++++|...+.+..+
T Consensus        30 aas~yekAAvafRnAk~feKakdcLlkA~~   59 (308)
T KOG1585|consen   30 AASLYEKAAVAFRNAKKFEKAKDCLLKASK   59 (308)
T ss_pred             hHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            455677778888889999999998888765

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.40  E-value=0.63  Score=33.09  Aligned_cols=45  Identities=9%  Similarity=0.213  Sum_probs=25.4

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhc
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRA   96 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   96 (344)
                      ...++..+.+.+........++.+...+  ..+...++.++..|++.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~--~~~~~~~~~li~ly~~~   54 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN--SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC--ccchhHHHHHHHHHHHH
Confidence            3445566665666666666666665542  24445556666666544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.24  E-value=1.7  Score=37.06  Aligned_cols=144  Identities=13%  Similarity=0.132  Sum_probs=103.7

Q ss_pred             HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH-HHHH
Q 038490          187 LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIY-SSLI  265 (344)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~  265 (344)
                      ...|...+....+..-.+.|..+|-++.+..-+.+++.++++++..++ .|+..-|.++|+--...-  ||...| +-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f--~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF--PDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC--CCchHHHHHHH
Confidence            445666777777888899999999996554336778889999998765 578888999998776652  344444 5567


Q ss_pred             HHHHHcCCcCcHHHHHHHHHHcCCCCC--hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 038490          266 SALFKAGRKNEFPAILKEMKERGCKPN--SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILG  336 (344)
Q Consensus       266 ~~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  336 (344)
                      ..+...++-+.|..+|+....+ +.-+  ...|..+|.--..-|+...+..+=+.|...  .|...+...+..
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~S  543 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTS  543 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHH
Confidence            7788899999999999965443 1112  467889998888899998888887777653  344444433333

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.18  E-value=1.8  Score=36.95  Aligned_cols=258  Identities=11%  Similarity=0.131  Sum_probs=143.9

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhH------HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH--
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEII------FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP--  127 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--  127 (344)
                      .+.+.+++++|..+|.++.+..  ..++..      -+.++++|. .++.+........+.+..  | ...|..+..+  
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~--~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~   88 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEK--ESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQF--G-KSAYLPLFKALV   88 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHh--hcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhc--C-CchHHHHHHHHH
Confidence            4567899999999999987752  333222      234667765 455666666666666542  2 2234444433  


Q ss_pred             HHhcCChHHHHHHHHHHhccCCC------Ccc---------cHHHHHHHHHhhCChhHHHHHHHHHhhC----CCCcCHh
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSP------DAC---------SYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQPTLV  188 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~------~~~---------~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~  188 (344)
                      +.+.+++++|.+.+.........      +..         .-+..+.++...|++.++..+++++...    ...-+..
T Consensus        89 ~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d  168 (549)
T PF07079_consen   89 AYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSD  168 (549)
T ss_pred             HHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHH
Confidence            35678899999988776554221      111         1156677888999999999999988764    3335777


Q ss_pred             hHHHHHHHHHhhc---------------hHHHHHHHHHHHHHh-----cCCCCCHHHHHHHHHHHHhcC--ChHHHHHHH
Q 038490          189 TFGTLIYGLCLEL---------------RVDEALKLKEDIMRV-----YNVKPDGQVFASLIKGLCAVG--ELSLALGVK  246 (344)
Q Consensus       189 ~~~~l~~~~~~~~---------------~~~~a~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~  246 (344)
                      +|+.++-.+.++=               -++.+.-..+++...     ..+.|.......+++...-..  +..--.+++
T Consensus       169 ~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l  248 (549)
T PF07079_consen  169 MYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQIL  248 (549)
T ss_pred             HHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHH
Confidence            8877554444321               112222222221111     123444444555554443222  222233344


Q ss_pred             HHHHHCCCCCCHH-HHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC----ChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          247 EEMVRDKIEMDAG-IYSSLISALFKAGRKNEFPAILKEMKERGCKP----NSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       247 ~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +.-...-+.|+-. +...+...+..  +.+++..+.+.+....+.+    -..+|..++....+.++...|.+.+.-+.-
T Consensus       249 ~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  249 ENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            4444444445432 23344444444  4556655555544332111    235677888888888998888888876654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.16  E-value=1.1  Score=34.69  Aligned_cols=206  Identities=13%  Similarity=0.083  Sum_probs=89.3

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..|.....+|...+++++|...+.+..+.. +.+...|. ..      ..++.|.-+.+++.... .-...|+--...|.
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~y-Ennrslfh-AA------KayEqaamLake~~kls-Evvdl~eKAs~lY~  102 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKGY-ENNRSLFH-AA------KAYEQAAMLAKELSKLS-EVVDLYEKASELYV  102 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHHH-HhcccHHH-HH------HHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHH
Confidence            455566677777888888887776665321 22221111 11      12233333333333210 11223444455666


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHHhcCCh
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN----VKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      .+|..+.|-..+++.-+.                ..+-++++|+++|++......    ...-...+...-..+.+...+
T Consensus       103 E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf  166 (308)
T KOG1585|consen  103 ECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKF  166 (308)
T ss_pred             HhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHh
Confidence            666666665555554321                112223333333333221100    000111222333344444555


Q ss_pred             HHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHHcCCcCcHHHHHHHHHHc---CCCCChhhHHHHHHHHhccCCHHH
Q 038490          240 SLALGVKEEMVRD----KIEMDA-GIYSSLISALFKAGRKNEFPAILKEMKER---GCKPNSVTYNALISGFCKEEDFEA  311 (344)
Q Consensus       240 ~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~  311 (344)
                      .+|-..+.+-...    .--++. ..|-..|-.+....++..|...++.--..   .-.-+..+...|+.+| ..||.++
T Consensus       167 ~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~  245 (308)
T KOG1585|consen  167 TEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEE  245 (308)
T ss_pred             hHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHH
Confidence            5444333222110    001111 22444455555566777777777663322   1122445566666665 3456665


Q ss_pred             HHHH
Q 038490          312 AFTI  315 (344)
Q Consensus       312 a~~~  315 (344)
                      +..+
T Consensus       246 ~~kv  249 (308)
T KOG1585|consen  246 IKKV  249 (308)
T ss_pred             HHHH
Confidence            5544

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.03  E-value=0.75  Score=31.88  Aligned_cols=62  Identities=23%  Similarity=0.309  Sum_probs=28.4

Q ss_pred             HHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCC
Q 038490          262 SSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGC  324 (344)
Q Consensus       262 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  324 (344)
                      ...+......|.-+.-.+++.++.+. -.+++...-.+..+|.+.|+..++..++.+..+.|+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            33444455555555555555554431 234445555555555555555555555555555554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=95.01  E-value=0.001  Score=47.70  Aligned_cols=135  Identities=10%  Similarity=0.144  Sum_probs=78.8

Q ss_pred             CCCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC
Q 038490            1 KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV   80 (344)
Q Consensus         1 ~p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   80 (344)
                      +|.....++..+.+.+.+..+..+++.+....          ...+....+.++..|++.+..++..++++...   .  
T Consensus         6 ~~~~~~~vi~~~~~~~~~~~l~~yLe~~~~~~----------~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~---~--   70 (143)
T PF00637_consen    6 DPLEISEVISAFEERNQPEELIEYLEALVKEN----------KENNPDLHTLLLELYIKYDPYEKLLEFLKTSN---N--   70 (143)
T ss_dssp             TTSCSCCCHHHCTTTT-GGGCTCCHHHHHHTS----------TC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS---S--
T ss_pred             CccCHHHHHHHHHhCCCHHHHHHHHHHHHhcc----------cccCHHHHHHHHHHHHhcCCchHHHHHccccc---c--
Confidence            35666778888888888888888888874322          12367778888888888887788777766221   1  


Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                         .-...++..|.+.+.++++.-++.++-...         ..+..+...++++.|.+.+...     .+...|..++.
T Consensus        71 ---yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~---------~al~i~~~~~~~~~a~e~~~~~-----~~~~l~~~l~~  133 (143)
T PF00637_consen   71 ---YDLDKALRLCEKHGLYEEAVYLYSKLGNHD---------EALEILHKLKDYEEAIEYAKKV-----DDPELWEQLLK  133 (143)
T ss_dssp             ---S-CTHHHHHHHTTTSHHHHHHHHHCCTTHT---------TCSSTSSSTHCSCCCTTTGGGC-----SSSHHHHHHHH
T ss_pred             ---cCHHHHHHHHHhcchHHHHHHHHHHcccHH---------HHHHHHHHHccHHHHHHHHHhc-----CcHHHHHHHHH
Confidence               222346677777777777777766544321         1111122334444444222222     44566666666


Q ss_pred             HHHhhCC
Q 038490          161 GCVVSRR  167 (344)
Q Consensus       161 ~~~~~~~  167 (344)
                      .+...+.
T Consensus       134 ~~l~~~~  140 (143)
T PF00637_consen  134 YCLDSKP  140 (143)
T ss_dssp             HHCTSTC
T ss_pred             HHHhcCc
Confidence            6655443

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.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.00  E-value=1.3  Score=34.62  Aligned_cols=182  Identities=11%  Similarity=0.001  Sum_probs=89.4

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC  131 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  131 (344)
                      -+..-.+.|++++|.+.|+.+.......| ...+.-.++-++.+.++++.|+...++..+....-...-|...|.+++..
T Consensus        40 ~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~  119 (254)
T COG4105          40 EGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYF  119 (254)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh
Confidence            33444566777777777777765432111 22344445566666777777777777766543221222244444433321


Q ss_pred             -------CChHHHHHHH---HHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc
Q 038490          132 -------GKLDRMKELF---QIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL  201 (344)
Q Consensus       132 -------~~~~~a~~~~---~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  201 (344)
                             .|...+...+   +.+.+..|.+..              ...|...+..+...    =...=..+.+-|.+.|
T Consensus       120 ~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Y--------------a~dA~~~i~~~~d~----LA~~Em~IaryY~kr~  181 (254)
T COG4105         120 FQIDDVTRDQSAARAAFAAFKELVQRYPNSRY--------------APDAKARIVKLNDA----LAGHEMAIARYYLKRG  181 (254)
T ss_pred             ccCCccccCHHHHHHHHHHHHHHHHHCCCCcc--------------hhhHHHHHHHHHHH----HHHHHHHHHHHHHHhc
Confidence                   2222222222   222222211111              11111111111110    0000113446677888


Q ss_pred             hHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          202 RVDEALKLKEDIMRVYNVKP-DGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      .+..|..-++++++...-.+ ....+-.+..+|...|-.++|.+.-.-+...
T Consensus       182 ~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         182 AYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             ChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            88888888888877532222 1334566677788888888887776666554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.94  E-value=0.41  Score=45.38  Aligned_cols=178  Identities=17%  Similarity=0.219  Sum_probs=101.5

Q ss_pred             cccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchh--hHHHHHHHHHhcC--CchHHHHHHHHhh--hcC--CCCCchh
Q 038490           13 RLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLL--HYDLIITKLGRAK--MFDEMQQILHQLK--HDT--RIVPKEI   84 (344)
Q Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~--~~~~a~~~~~~~~--~~~--~~~~~~~   84 (344)
                      ..+.|+.+=+-+++++......     .+.++-|..  -|...+..+...|  -++++..+.++-.  ...  -+.|+..
T Consensus       862 ~SqkDPkEyLP~L~el~~m~~~-----~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e  936 (1265)
T KOG1920|consen  862 KSQKDPKEYLPFLNELKKMETL-----LRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSE  936 (1265)
T ss_pred             HhccChHHHHHHHHHHhhchhh-----hhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHH
Confidence            3466777777777776432211     222332322  2444555555555  4666666554311  000  1356666


Q ss_pred             HHHHHHHHH----HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           85 IFCNVIGFY----GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        85 ~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      .+..+..+|    .+...+++|.-+|+..-+         ....+.+|..+|+|++|+.+..++......-..+-..|+.
T Consensus       937 ~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s 1007 (1265)
T KOG1920|consen  937 KQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVS 1007 (1265)
T ss_pred             HHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHH
Confidence            655555444    456677777777765433         2345677788888888888887775421111122256777


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      -+...++.-+|-++..+....        ..-.+..+++...+++|..+...
T Consensus      1008 ~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1008 RLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHh
Confidence            788888888888888776654        12233455666677777666544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.89  E-value=1.7  Score=35.40  Aligned_cols=129  Identities=9%  Similarity=0.155  Sum_probs=60.0

Q ss_pred             hHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh--h----chHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHhcCC--
Q 038490          169 EDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL--E----LRVDEALKLKEDIMRVYNVK--PDGQVFASLIKGLCAVGE--  238 (344)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~--  238 (344)
                      ++.+.+++.|.+.|.+-+..+|.+.......  .    ....++..+|+.|.+.+.+-  ++...+..++..  ..++  
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            3445566666666666666555443322221  1    23455666666655544332  233344444332  2222  


Q ss_pred             --hHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHcCC--cCcHHHHHHHHHHcCCCCChhhHHHH
Q 038490          239 --LSLALGVKEEMVRDKIEMDA--GIYSSLISALFKAGR--KNEFPAILKEMKERGCKPNSVTYNAL  299 (344)
Q Consensus       239 --~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~~~~~l  299 (344)
                        .+.++.+|+.+.+.|+..+-  .....++..+.....  ...+.++++.+.+.|+++....|..+
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence              23455556666665554322  222222222222111  23556666666666666655555444

>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=94.83  E-value=1  Score=33.55  Aligned_cols=63  Identities=11%  Similarity=0.250  Sum_probs=42.1

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT--VKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+++.....+++..+...+.+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4566677777778888888888877776543332  34566667777777777777776666554

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.57  E-value=3.1  Score=36.79  Aligned_cols=92  Identities=8%  Similarity=0.130  Sum_probs=61.7

Q ss_pred             hhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHH-hcCCchHHHHHHHHhhhcCCCC-CchhHH
Q 038490            9 ACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLG-RAKMFDEMQQILHQLKHDTRIV-PKEIIF   86 (344)
Q Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~-~~~~~~   86 (344)
                      +..=.+.|..+.+..+|++.           +.+++.++..|......+. ..|+.+...+.|+......|.. -+...|
T Consensus        86 A~~E~klg~~~~s~~Vferg-----------v~aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lW  154 (577)
T KOG1258|consen   86 ADYEYKLGNAENSVKVFERG-----------VQAIPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLW  154 (577)
T ss_pred             HHHHHHhhhHHHHHHHHHHH-----------HHhhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHH
Confidence            33344567788888888886           4456667777766665444 4567777888888877654433 234556


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      ...|..-..++++.....+|+++++
T Consensus       155 dkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  155 DKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHh
Confidence            6677766777778888777777764

>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=94.46  E-value=0.79  Score=34.14  Aligned_cols=96  Identities=10%  Similarity=-0.023  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCC---CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC---CCCcCHhhHHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS---PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR---RLQPTLVTFGT  192 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~  192 (344)
                      ..+..+...|.+.|+.+.|.+.+.++.+...   .-...+-.+++.....+++..+...+.+....   |...+...--.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            3567788888888888888888888877544   22344566777778888888888887776543   22222211111


Q ss_pred             HHH--HHHhhchHHHHHHHHHHHH
Q 038490          193 LIY--GLCLELRVDEALKLKEDIM  214 (344)
Q Consensus       193 l~~--~~~~~~~~~~a~~~~~~~~  214 (344)
                      +..  .+...+++..|-+.|-+..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            111  2234567777777775543

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.45  E-value=2.4  Score=35.06  Aligned_cols=170  Identities=11%  Similarity=-0.001  Sum_probs=110.6

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch---hHHHHHHHHHHhcccHHHHHHHHHHHHhcC-----CCCCH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE---IIFCNVIGFYGRARLLERALQMFDEMSSFN-----VQMTV  118 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~  118 (344)
                      ..+|..+.+++-+.-++.+++.+-..-....|..|..   .....+..++...+.++++++.|+...+..     .-...
T Consensus        83 ~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LEl  162 (518)
T KOG1941|consen   83 LEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLEL  162 (518)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeee
Confidence            4456666666666677777777666655444444421   233446677888889999999999887531     11234


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhcc----CCCCcc-cH-----HHHHHHHHhhCChhHHHHHHHHHhh----CCCC
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKY----VSPDAC-SY-----NILIHGCVVSRRLEDAWKVFDEMVK----RRLQ  184 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~-----~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~  184 (344)
                      .+|..|-..|.+..|+++|.-+..+..+.    +..+.. .|     .-|.-++...|.+..|.+.-++..+    .|-+
T Consensus       163 qvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdr  242 (518)
T KOG1941|consen  163 QVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDR  242 (518)
T ss_pred             ehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCh
Confidence            67899999999999999988766554332    112211 12     2234466778888888888777644    3433


Q ss_pred             cC-HhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          185 PT-LVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       185 ~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      +. ......+.+.|...|+.+.|+.-|++.+..
T Consensus       243 a~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~  275 (518)
T KOG1941|consen  243 ALQARCLLCFADIYRSRGDLERAFRRYEQAMGT  275 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHH
Confidence            21 223445667888899999999999887643

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.34  E-value=1.7  Score=34.77  Aligned_cols=62  Identities=13%  Similarity=0.139  Sum_probs=30.7

Q ss_pred             CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHH
Q 038490          256 MDAGIYSSLISALFKAGRKNEFPAILKEMKER-GCKPNSVTYNALISGFCKEEDFEAAFTILD  317 (344)
Q Consensus       256 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  317 (344)
                      ++..+...++..+++.+++.+-.++++..... +..-|...|..+|......|+..-...+.+
T Consensus       200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            34444555555555555555555555544333 333355555555555555555544444443

>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=94.26  E-value=0.052  Score=38.85  Aligned_cols=53  Identities=15%  Similarity=0.186  Sum_probs=26.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHH
Q 038490          230 IKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            33444455555555555555554434445555555555555555555555554

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.20  E-value=2  Score=33.09  Aligned_cols=224  Identities=18%  Similarity=0.119  Sum_probs=161.1

Q ss_pred             cccHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHhc--cCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           96 ARLLERALQMFDEMSSFNVQ-MTVKFFNTLLNPKLTCGKLDRMKELFQIMEK--YVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        96 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      .+....+...+......... .....+......+...+++..+...+.....  ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45666676777766655422 1356778888888999999999998888775  33466677777888888889999999


Q ss_pred             HHHHHHhhCCCCcCHhhHHHHHH-HHHhhchHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490          173 KVFDEMVKRRLQPTLVTFGTLIY-GLCLELRVDEALKLKEDIMRVYNV--KPDGQVFASLIKGLCAVGELSLALGVKEEM  249 (344)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  249 (344)
                      ..+.........+ ......... .+...|+++.+...+.+... ...  ......+......+...++.+.+...+...
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            9999988764443 222222333 68899999999999999754 221  123344444455567889999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          250 VRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       250 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      ...........+..+...+...++.+.+...+......... ....+..+...+...+..+.+...+.+..+.
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88643324677888888999999999999999998886322 2344445555555777799999988888764

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.18  E-value=1.9  Score=32.88  Aligned_cols=184  Identities=16%  Similarity=0.057  Sum_probs=102.7

Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           93 YGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        93 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      |-..|-+.-|.--|....... |.-+.+||-|.--+...|+++.|.+.|+...+.++....+...-.-++.-.|++.-|.
T Consensus        75 YDSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq  153 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQ  153 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhH
Confidence            334455555555566555543 3346788888888888999999999999988776544333332233344568888888


Q ss_pred             HHHHHHhhCCCC-cCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHH-HHHHHHhcCChHHHHHHHHHHH
Q 038490          173 KVFDEMVKRRLQ-PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFAS-LIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       173 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                      +-+.+.-+.+.. |=...|..+.   ...-++.+|..-+.+--+    ..|..-|.. ++..|.  |++. ...+++++.
T Consensus       154 ~d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~----~~d~e~WG~~iV~~yL--gkiS-~e~l~~~~~  223 (297)
T COG4785         154 DDLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAE----KSDKEQWGWNIVEFYL--GKIS-EETLMERLK  223 (297)
T ss_pred             HHHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHH----hccHhhhhHHHHHHHH--hhcc-HHHHHHHHH
Confidence            777776655322 2222232222   234455555544433122    223233322 222222  2221 122233333


Q ss_pred             HCCCC------CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          251 RDKIE------MDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       251 ~~~~~------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ...-.      .-..||.-|.+.+...|+.++|..+|+-....
T Consensus       224 a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         224 ADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             hhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            21110      12356777888888899999999999887775

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.18  E-value=3.4  Score=35.78  Aligned_cols=61  Identities=18%  Similarity=0.237  Sum_probs=45.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          227 ASLIKGLCAVGELSLALGVKEEMVRDKIE-MDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       227 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ..+..++-+.|+.++|.+.++++.+.... -+..+...|+.++...+.+.++..++.+..+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            45666677888888888888888765432 24456777888888888888888888887544

The molecular function of this protein is uncertain.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.09  E-value=0.43  Score=30.84  Aligned_cols=45  Identities=16%  Similarity=0.259  Sum_probs=25.6

Q ss_pred             HHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 038490           65 EMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMS  110 (344)
Q Consensus        65 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  110 (344)
                      ++++-++.+... ...|++.+..+.+++|.+.+++..|.++++...
T Consensus        25 e~rr~mN~l~~~-DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGY-DLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444443 355666666666666666666666666666554

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.05  E-value=0.16  Score=26.21  Aligned_cols=24  Identities=17%  Similarity=0.365  Sum_probs=13.4

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHH
Q 038490           86 FCNVIGFYGRARLLERALQMFDEM  109 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~  109 (344)
                      +..|...|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445555666666666666666553

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.03  E-value=0.12  Score=26.57  Aligned_cols=22  Identities=18%  Similarity=0.090  Sum_probs=9.8

Q ss_pred             HHHHHHHHhhCChhHHHHHHHH
Q 038490          156 NILIHGCVVSRRLEDAWKVFDE  177 (344)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~  177 (344)
                      ..|...|.+.|++++|++++++
T Consensus         3 ~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    3 NNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444444444444444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.99  E-value=1.7  Score=35.10  Aligned_cols=104  Identities=10%  Similarity=0.068  Sum_probs=67.2

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC---CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhh
Q 038490          113 NVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS---PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVT  189 (344)
Q Consensus       113 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  189 (344)
                      |.+....+...++..-....+.+.+...+-+++....   ....+-.++++.+.+ -+.++++.++..=.+-|+-||.++
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHc-cChHHHHHHHhCcchhccccchhh
Confidence            3344444455555555556677777777777665432   112222333444333 356678888877778888888888


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhc
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVY  217 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~  217 (344)
                      ++.+|+.+.+.+++.+|.++...++.+.
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            8888888888888888888877766553

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.89  E-value=0.65  Score=30.41  Aligned_cols=44  Identities=16%  Similarity=0.238  Sum_probs=19.2

Q ss_pred             HHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 038490           66 MQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMS  110 (344)
Q Consensus        66 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  110 (344)
                      ..+-++.+... .+.|++.+..+.+++|.+.+++..|.++|+.+.
T Consensus        29 ~rrglN~l~~~-DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   29 LRRGLNNLFGY-DLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHTTS-SB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhcc-ccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33334443333 244555555555555555555555555555444

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 ....

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=93.84  E-value=5.7  Score=37.07  Aligned_cols=224  Identities=15%  Similarity=0.015  Sum_probs=122.2

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCH-------HHHHHHH-HHHHhcCChHHHHHHHHHHhccCC-----CCcccHHHHHHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTV-------KFFNTLL-NPKLTCGKLDRMKELFQIMEKYVS-----PDACSYNILIHG  161 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~l~~~  161 (344)
                      ...++++|..+..++...-..|+.       ..++.|- ......|+.+.|..+.+.....-+     .....+..+..+
T Consensus       427 s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a  506 (894)
T COG2909         427 SQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEA  506 (894)
T ss_pred             HccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHH
Confidence            467889999888888654212221       1334332 233456888999988887765433     455566777788


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHH-----HHHHhhchH--HHHHHHHHHHHHhcC--CC---CCHHHHHHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI-----YGLCLELRV--DEALKLKEDIMRVYN--VK---PDGQVFASL  229 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~--~~a~~~~~~~~~~~~--~~---~~~~~~~~l  229 (344)
                      ..-.|++++|..+..+..+..-.-++..+..+.     ..+...|+.  .+....+...-....  .+   +-..++..+
T Consensus       507 ~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~l  586 (894)
T COG2909         507 AHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQL  586 (894)
T ss_pred             HHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHH
Confidence            888999999999888776543333444443332     234455632  233333333222111  11   122345555


Q ss_pred             HHHHHhcC-ChHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhh-H---HHHHH-
Q 038490          230 IKGLCAVG-ELSLALGVKEEMVRDKIEMDAGI--YSSLISALFKAGRKNEFPAILKEMKERGCKPNSVT-Y---NALIS-  301 (344)
Q Consensus       230 ~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~---~~l~~-  301 (344)
                      +.++.+.. ...++..-+..-......|-..-  +..|+......|+.++|...++++......+.... |   ...+. 
T Consensus       587 l~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~~  666 (894)
T COG2909         587 LRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVKL  666 (894)
T ss_pred             HHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhhH
Confidence            55555521 12222222222222222222222  23677888889999999999999877644432211 1   22222 


Q ss_pred             -HHhccCCHHHHHHHHHH
Q 038490          302 -GFCKEEDFEAAFTILDE  318 (344)
Q Consensus       302 -~~~~~~~~~~a~~~~~~  318 (344)
                       .....|+.+.+.....+
T Consensus       667 ~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         667 ILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHhcccCCHHHHHHHHHh
Confidence             23457888777776665

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.75  E-value=0.1  Score=26.54  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=9.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHH
Q 038490          117 TVKFFNTLLNPKLTCGKLDRM  137 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a  137 (344)
                      +...|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            344444444444444444444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.64  E-value=0.84  Score=36.77  Aligned_cols=100  Identities=15%  Similarity=0.123  Sum_probs=58.2

Q ss_pred             CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC---CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHH
Q 038490          150 PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR---LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVF  226 (344)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (344)
                      ....+...++..-....+++.++..+-++...-   ..|.... ..+++. +..-+.++++.++..=+ .+|+-||..++
T Consensus        62 ~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irl-llky~pq~~i~~l~npI-qYGiF~dqf~~  138 (418)
T KOG4570|consen   62 VSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRL-LLKYDPQKAIYTLVNPI-QYGIFPDQFTF  138 (418)
T ss_pred             cceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHH-HHccChHHHHHHHhCcc-hhccccchhhH
Confidence            344455555555555666777777777665441   1122211 122322 22335556666666633 35777777777


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          227 ASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       227 ~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +.+++.+.+.+++.+|..+...|...
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            77777777777777777776666543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.42  E-value=8  Score=37.43  Aligned_cols=80  Identities=20%  Similarity=0.312  Sum_probs=48.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccC
Q 038490          230 IKGLCAVGELSLALGVKEEMVRDKIEMDAG--IYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEE  307 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  307 (344)
                      +.+|..+|++.+|..+..++...   -+..  +-..|+.-+...+++-+|-++..+....        ....+..+++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHh
Confidence            45556666666666666555432   1222  2255677777888888888887776653        123445566667


Q ss_pred             CHHHHHHHHHHHh
Q 038490          308 DFEAAFTILDEMG  320 (344)
Q Consensus       308 ~~~~a~~~~~~~~  320 (344)
                      .|++|.++.....
T Consensus      1041 ~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1041 EWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHHhcc
Confidence            7888887765544

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.32  E-value=2.8  Score=37.20  Aligned_cols=100  Identities=16%  Similarity=0.117  Sum_probs=49.8

Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHH
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALK  208 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  208 (344)
                      .+.|+++.|.++..+.     .+..-|..|.++..+.+++..|.+.|.+..+         |..|+-.+...|+.+....
T Consensus       648 l~lgrl~iA~~la~e~-----~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~  713 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA-----NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAV  713 (794)
T ss_pred             hhcCcHHHHHHHHHhh-----cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHH
Confidence            3456666666655544     3455566666666666666666666655433         2234444444555444433


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490          209 LKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEM  249 (344)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  249 (344)
                      +-....+. | ..+ ..|    .+|...|+++++.+++..-
T Consensus       714 la~~~~~~-g-~~N-~AF----~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  714 LASLAKKQ-G-KNN-LAF----LAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHHhh-c-ccc-hHH----HHHHHcCCHHHHHHHHHhc
Confidence            33332222 2 112 111    2344556666666655443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.25  E-value=2.4  Score=31.06  Aligned_cols=135  Identities=10%  Similarity=-0.043  Sum_probs=78.8

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcc-cHHHH-
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV-KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDAC-SYNIL-  158 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~l-  158 (344)
                      ...|...++. ++.+..++|+.-|..+.+.|...-+ -............|+...|...|+++-...+ |... -..-| 
T Consensus        59 gd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          59 GDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             hHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            3445444443 3566777777888777776643211 1222333445667777788888877755433 3222 11111 


Q ss_pred             -HHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC
Q 038490          159 -IHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN  218 (344)
Q Consensus       159 -~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  218 (344)
                       .-.+...|.++.....++.+...+-+.-...-..|.-+-.+.|++.+|.+.|..+....+
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~  198 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQ  198 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcccc
Confidence             123456777887777777766555444444445566666778888888888888766433

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.11  E-value=0.81  Score=29.66  Aligned_cols=50  Identities=8%  Similarity=-0.003  Sum_probs=34.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          238 ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +.-++.+-++.+...+..|++.+..+.+++|.+.+++.-|.++|+-.+.+
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K   71 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK   71 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34455666666666666777777777777777777777777777766643

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.09  E-value=0.1  Score=26.49  Aligned_cols=32  Identities=19%  Similarity=0.169  Sum_probs=20.8

Q ss_pred             HHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490          141 FQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      |++..+..|.+..+|+.+...|...|++++|+
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            34444555666677777777777777777664

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.05  E-value=2.6  Score=30.89  Aligned_cols=136  Identities=15%  Similarity=0.007  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCccc--HHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHh-hHHHH--
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACS--YNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLV-TFGTL--  193 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--  193 (344)
                      ..|...++ +++.+..++|+.-|..+.+.+..+-..  ---........|+...|...|+++-.....|-.. -...|  
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            34444444 345667788888888887755422211  1222344567788888888888877664444332 11111  


Q ss_pred             HHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 038490          194 IYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM  256 (344)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  256 (344)
                      .-.+...|.+++.....+-+ ...+-+--...-..|.-+-.+.|++..|...|..+......|
T Consensus       139 a~lLvD~gsy~dV~srvepL-a~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPL-AGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHhccccHHHHHHHhhhc-cCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            12345678888887777763 222333333444566666678888888888888887654333

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.99  E-value=2.4  Score=30.21  Aligned_cols=51  Identities=4%  Similarity=-0.038  Sum_probs=22.4

Q ss_pred             cCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          131 CGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       131 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      .++.+++..+++.+.-..|.....-..-...+...|+|++|.++|++..+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            445555555555544433322222222223334455555555555555444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.92  E-value=2.6  Score=30.50  Aligned_cols=111  Identities=18%  Similarity=0.152  Sum_probs=59.9

Q ss_pred             HHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                      .-.+.++.+++..++..+.-...-.+...++...  .+...|++.+|..+|+++....  |....-..|+..|....+-.
T Consensus        19 ~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~--l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   19 VALRLGDPDDAEALLDALRVLRPEFPELDLFDGW--LHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HHHccCChHHHHHHHHHHHHhCCCchHHHHHHHH--HHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCCh
Confidence            3456778888888888754332222233344433  3568889999999999887663  34444445555555443332


Q ss_pred             cHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHH
Q 038490          276 EFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAF  313 (344)
Q Consensus       276 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  313 (344)
                      .=...-+++.+.+..|+.   ..++..+....+...|.
T Consensus        95 ~Wr~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~  129 (160)
T PF09613_consen   95 SWRRYADEVLESGADPDA---RALVRALLARADLEPAH  129 (160)
T ss_pred             HHHHHHHHHHhcCCChHH---HHHHHHHHHhccccchh
Confidence            333334445555433332   23444444444443333

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.74  E-value=2.9  Score=30.62  Aligned_cols=134  Identities=16%  Similarity=0.224  Sum_probs=61.0

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCC
Q 038490          104 QMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL  183 (344)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  183 (344)
                      +..+.+.+.+++|+...+..+++.+.+.|++.....+++.-.   .+|.......+-.+  .+....+.++=-+|.++  
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~V---i~DSk~lA~~LLs~--~~~~~~~~Ql~lDMLkR--   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHV---IPDSKPLACQLLSL--GNQYPPAYQLGLDMLKR--   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcc---cCCcHHHHHHHHHh--HccChHHHHHHHHHHHH--
Confidence            344455556666666666666776666666554444333211   13333322222111  12233333333333332  


Q ss_pred             CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          184 QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       184 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                        =...+..++..+...|++-+|.++.+.....     +......++++..+.+|...-..+++-..+
T Consensus        88 --L~~~~~~iievLL~~g~vl~ALr~ar~~~~~-----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 --LGTAYEEIIEVLLSKGQVLEALRYARQYHKV-----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             --hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc-----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              0112344555566666666666666552111     111223445555555555544444444443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.51  E-value=3  Score=30.19  Aligned_cols=51  Identities=14%  Similarity=0.044  Sum_probs=21.8

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      +.++.+++..+++.+.... |-....-..-...+...|+|.+|.++|+.+..
T Consensus        22 ~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            4445555555555554432 11111112222333445555555555555543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.25  E-value=3.2  Score=35.73  Aligned_cols=120  Identities=8%  Similarity=-0.001  Sum_probs=80.0

Q ss_pred             HhcccHHHHHH-HHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           94 GRARLLERALQ-MFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        94 ~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      ...|+.-.|-+ ++..+....-.|+.  .......+...|+++.+.+.+......-.....+..++++...+.|+++.|.
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~--i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVL--IQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchh--hHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHH
Confidence            35566665544 44444443223433  3333344567799999988887776654566778888899999999999999


Q ss_pred             HHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHh
Q 038490          173 KVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      ..-+.|....+. ++...+......-..|-++++...|++++.-
T Consensus       378 s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        378 STAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            998888877655 4444443333445667888888888887643

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.19  E-value=1.1  Score=34.17  Aligned_cols=56  Identities=11%  Similarity=-0.048  Sum_probs=26.8

Q ss_pred             HHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 038490           52 LIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEM  109 (344)
Q Consensus        52 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  109 (344)
                      ..++.+.+.+++++++...+.-.+.  -+.+...-..++..++-.|++++|..-++..
T Consensus         6 ~t~seLL~~~sL~dai~~a~~qVka--kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           6 DTISELLDDNSLQDAIGLARDQVKA--KPTDAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhc--CCccccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            3444555555555555555544442  1223334444555555555555555444443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.90  E-value=2.5  Score=27.83  Aligned_cols=45  Identities=11%  Similarity=0.057  Sum_probs=22.0

Q ss_pred             HHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHH
Q 038490          171 AWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       171 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                      ..+-++.+....+.|++....+.+++|.+.+++..|+++++.+..
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            344444444555555555555555555555555555555555433

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 ....

>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=91.87  E-value=0.092  Score=24.72  Aligned_cols=26  Identities=31%  Similarity=0.379  Sum_probs=22.1

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKN   27 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~   27 (344)
                      |.....++..+...|++++|..++++
T Consensus         1 ~~a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    1 PRARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHhC
Confidence            45667889999999999999998864

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

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.75  E-value=3.6  Score=29.36  Aligned_cols=19  Identities=11%  Similarity=0.258  Sum_probs=10.1

Q ss_pred             HHhcCChHHHHHHHHHHhc
Q 038490          128 KLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~  146 (344)
                      +...|+|++|.++|+.+.+
T Consensus        54 ~i~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        54 LIARGNYDEAARILRELLS   72 (153)
T ss_pred             HHHcCCHHHHHHHHHhhhc
Confidence            3445555555555555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.72  E-value=9.9  Score=34.42  Aligned_cols=149  Identities=17%  Similarity=0.037  Sum_probs=65.2

Q ss_pred             hHHHHHHHHHHhccCCCCcccHHHHH--HH-HHhhCChhHHHHHHHHHhh-------CCCCcCHhhHHHHHHHHHhhc--
Q 038490          134 LDRMKELFQIMEKYVSPDACSYNILI--HG-CVVSRRLEDAWKVFDEMVK-------RRLQPTLVTFGTLIYGLCLEL--  201 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~--  201 (344)
                      ...|..+++.....+..........+  .+ +....+.+.|+.+|+.+.+       .|   .......+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            34556666655554332222221111  12 3345566667766666655       33   2223333444444422  


Q ss_pred             ---hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--HcCCcC
Q 038490          202 ---RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA-VGELSLALGVKEEMVRDKIEMDAGIYSSLISALF--KAGRKN  275 (344)
Q Consensus       202 ---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~  275 (344)
                         +.+.|..++...... | .|+....-..+..... ..+...|.++|....+.|.. ....+..++....  -..+.+
T Consensus       305 ~~~d~~~A~~~~~~aA~~-g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAEL-G-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             ccccHHHHHHHHHHHHhc-C-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHH
Confidence               455566666664432 2 2332222222111111 13456677777666666533 2221111111111  122445


Q ss_pred             cHHHHHHHHHHcC
Q 038490          276 EFPAILKEMKERG  288 (344)
Q Consensus       276 ~a~~~~~~~~~~~  288 (344)
                      .|...+.+..+.|
T Consensus       382 ~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG  394 (552)
T ss_pred             HHHHHHHHHHHcc
Confidence            5666666666655

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.55  E-value=0.43  Score=23.92  Aligned_cols=27  Identities=7%  Similarity=0.009  Sum_probs=13.5

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhh
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      +|..+..++...|++++|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344455555555555555555555444

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.01  E-value=0.52  Score=23.50  Aligned_cols=27  Identities=4%  Similarity=0.030  Sum_probs=14.1

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhh
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      .|..+...+...|++++|++.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344455555555555555555555544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.96  E-value=4.1  Score=30.75  Aligned_cols=90  Identities=11%  Similarity=0.013  Sum_probs=47.0

Q ss_pred             HHhhchHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 038490          197 LCLELRVDEALKLKEDIMRVYNVKPD---GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGR  273 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  273 (344)
                      +.+.|++++|..-|..++......+.   ...|..-..++.+.+.++.|+.-....++.++. .......-..+|.+...
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhhh
Confidence            34566666666666665553211111   123444445556666666666666666555433 22222233345566666


Q ss_pred             cCcHHHHHHHHHHc
Q 038490          274 KNEFPAILKEMKER  287 (344)
Q Consensus       274 ~~~a~~~~~~~~~~  287 (344)
                      +++|+.-|..+.+.
T Consensus       184 ~eealeDyKki~E~  197 (271)
T KOG4234|consen  184 YEEALEDYKKILES  197 (271)
T ss_pred             HHHHHHHHHHHHHh
Confidence            66666666666665

>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=90.94  E-value=4.2  Score=30.72  Aligned_cols=22  Identities=23%  Similarity=0.169  Sum_probs=9.7

Q ss_pred             CCHHHHHHHHHHHHHcCCcCcH
Q 038490          256 MDAGIYSSLISALFKAGRKNEF  277 (344)
Q Consensus       256 ~~~~~~~~l~~~~~~~g~~~~a  277 (344)
                      +|+..+..|+..+.+.|+++.|
T Consensus       176 ~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  176 FNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             CCHHHHHHHHHHHHHhcchhhh
Confidence            3444444444444444444433

>PRK09687 putative lyase; Provisional

Probab=90.72  E-value=7.9  Score=31.44  Aligned_cols=235  Identities=11%  Similarity=0.033  Sum_probs=139.6

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh----HHHHHHHHHHhccCCCCcccHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKL----DRMKELFQIMEKYVSPDACSYN  156 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~  156 (344)
                      ++..+....+..+...|..+ +...+..+..   .++...-...+.++...|+.    +++...+..+... .++...-.
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~-D~d~~VR~  109 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQD-VFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE-DKSACVRA  109 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcch-HHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc-CCCHHHHH
Confidence            45566666666776666533 3333333443   34566666677777777763    4566666655221 14444444


Q ss_pred             HHHHHHHhhCC-----hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490          157 ILIHGCVVSRR-----LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIK  231 (344)
Q Consensus       157 ~l~~~~~~~~~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  231 (344)
                      ..+.++...+.     ...+...+......   ++...-...+.++.+.++ ..++..+-.+++    .++..+-...+.
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~----d~~~~VR~~A~~  181 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVIND-EAAIPLLINLLK----DPNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCC-HHHHHHHHHHhc----CCCHHHHHHHHH
Confidence            45555544432     12334444333332   244444556667766665 456666666565    345555555666


Q ss_pred             HHHhcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHH
Q 038490          232 GLCAVG-ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFE  310 (344)
Q Consensus       232 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  310 (344)
                      ++.+.+ +.+.+...+..+..   .++..+-...+.++.+.|+ ..+...+-+..+.+   +  .....+.++...|+. 
T Consensus       182 aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-  251 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-  251 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-
Confidence            666553 24466666666664   3477777788888888887 45666666666542   2  234677888888885 


Q ss_pred             HHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          311 AAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       311 ~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      +|...+..+.+.  .||..+-...+.+|.+
T Consensus       252 ~a~p~L~~l~~~--~~d~~v~~~a~~a~~~  279 (280)
T PRK09687        252 TLLPVLDTLLYK--FDDNEIITKAIDKLKR  279 (280)
T ss_pred             hHHHHHHHHHhh--CCChhHHHHHHHHHhc
Confidence            688888888864  3588877777777654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.62  E-value=0.98  Score=22.56  Aligned_cols=23  Identities=17%  Similarity=0.216  Sum_probs=9.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHH
Q 038490          228 SLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       228 ~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                      .+..++...|++++|+..|++.+
T Consensus         6 ~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    6 NLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCchHHHHHHHHHH
Confidence            33334444444444444444443

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=90.52  E-value=8.5  Score=31.51  Aligned_cols=128  Identities=13%  Similarity=0.194  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh--cC----ChHHHHHHHHHHhccCC----CCcccHHHHHHHHHhhCCh
Q 038490           99 LERALQMFDEMSSFNVQMTVKFFNTLLNPKLT--CG----KLDRMKELFQIMEKYVS----PDACSYNILIHGCVVSRRL  168 (344)
Q Consensus        99 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~  168 (344)
                      +++...+++.|.+.|+..+..+|-+..-....  ..    ...+|..+++.|++..+    ++..++..++..  ..++.
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            45677788888888887777666553333333  12    25567788888887765    344444444443  33333


Q ss_pred             ----hHHHHHHHHHhhCCCCcCHh--hHHHHHHHHHhhc--hHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490          169 ----EDAWKVFDEMVKRRLQPTLV--TFGTLIYGLCLEL--RVDEALKLKEDIMRVYNVKPDGQVFASL  229 (344)
Q Consensus       169 ----~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l  229 (344)
                          +.++.+|+.+.+.|...+..  ..+.++..+....  ...++..+++. +++.++++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~-l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNA-LKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHH-HHHcCCccccccccHH
Confidence                45566666666655554332  2222222211111  13355555555 3444666655555443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.34  E-value=0.86  Score=23.98  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHH
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMS  110 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~  110 (344)
                      +++.+...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44555555555555555555555544

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.05  E-value=3.4  Score=36.64  Aligned_cols=131  Identities=15%  Similarity=0.106  Sum_probs=93.1

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      ..+++..+..+|-.++|+++--.-                 |     .-.....+.|+++.|.++..+..       +..
T Consensus       617 rt~va~Fle~~g~~e~AL~~s~D~-----------------d-----~rFelal~lgrl~iA~~la~e~~-------s~~  667 (794)
T KOG0276|consen  617 RTKVAHFLESQGMKEQALELSTDP-----------------D-----QRFELALKLGRLDIAFDLAVEAN-------SEV  667 (794)
T ss_pred             hhhHHhHhhhccchHhhhhcCCCh-----------------h-----hhhhhhhhcCcHHHHHHHHHhhc-------chH
Confidence            345666667777777777654222                 1     12345678899999998876653       455


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV  164 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (344)
                      -|..|.++....+++..|.+.|.....         |..|+-.+...|+-+....+-...++.+.     .|.-..+|..
T Consensus       668 Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-----~N~AF~~~~l  733 (794)
T KOG0276|consen  668 KWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-----NNLAFLAYFL  733 (794)
T ss_pred             HHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-----cchHHHHHHH
Confidence            688999999999999999999987765         55677777888887766666666665443     3344566778


Q ss_pred             hCChhHHHHHHHHH
Q 038490          165 SRRLEDAWKVFDEM  178 (344)
Q Consensus       165 ~~~~~~a~~~~~~~  178 (344)
                      .|+++++.+++..-
T Consensus       734 ~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  734 SGDYEECLELLIST  747 (794)
T ss_pred             cCCHHHHHHHHHhc
Confidence            89999999888654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.88  E-value=1.1  Score=23.50  Aligned_cols=26  Identities=27%  Similarity=0.308  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                      +++.+...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44455555555555555555555544

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=89.76  E-value=0.91  Score=24.67  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=14.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhC
Q 038490          299 LISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       299 l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      +..+|...|+.+.|..++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            445566666666666666666544

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.59  E-value=7.5  Score=29.44  Aligned_cols=89  Identities=9%  Similarity=-0.008  Sum_probs=61.1

Q ss_pred             HHHhcccHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           92 FYGRARLLERALQMFDEMSSFNVQMTV-----KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        92 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      -+...|++++|..-|...+..- ++..     ..|..-..++.+.+.++.|..-..+..+.++....+..--..+|.+..
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            3457788888888888887654 3322     234444456777888888888777777665544444444456788888


Q ss_pred             ChhHHHHHHHHHhhC
Q 038490          167 RLEDAWKVFDEMVKR  181 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~  181 (344)
                      .++.|+.-|.++.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            888888888888776

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.53  E-value=16  Score=33.15  Aligned_cols=279  Identities=14%  Similarity=0.091  Sum_probs=150.7

Q ss_pred             chHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHH-----HhcCCchHHHHHHHHhhhc---CCCCCchhHHHHH
Q 038490           18 PKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKL-----GRAKMFDEMQQILHQLKHD---TRIVPKEIIFCNV   89 (344)
Q Consensus        18 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~l   89 (344)
                      ...|.++++.....+             +...-..+..++     ....+.+.|..+|+...+.   .-..-.+.....+
T Consensus       228 ~~~a~~~~~~~a~~g-------------~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~a~~~l  294 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG-------------HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPPAQYGL  294 (552)
T ss_pred             hhHHHHHHHHHHhhc-------------chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCccccHH
Confidence            456777777764444             333333333333     3457889999999888661   0001133345556


Q ss_pred             HHHHHhc----c-cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           90 IGFYGRA----R-LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT-CGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        90 ~~~~~~~----~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..+|.+.    . +.+.|..++...-+.| .|+.......+..... ..+...|.++|...-..|......+..++-...
T Consensus       295 g~~Y~~g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G  373 (552)
T KOG1550|consen  295 GRLYLQGLGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELG  373 (552)
T ss_pred             HHHHhcCCCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Confidence            6666653    2 6788999999999888 5665544444433333 246789999999988776554444433333222


Q ss_pred             --hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHH-H---HHh--
Q 038490          164 --VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIK-G---LCA--  235 (344)
Q Consensus       164 --~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~-~---~~~--  235 (344)
                        -..+...|..++.+..+.| .|....-...+..+.. ++++.+...+..+... +... ..+-...+. .   ...  
T Consensus       374 ~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~-~q~~a~~l~~~~~~~~~~~  449 (552)
T KOG1550|consen  374 LGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAEL-GYEV-AQSNAAYLLDQSEEDLFSR  449 (552)
T ss_pred             CCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHh-hhhH-HhhHHHHHHHhcccccccc
Confidence              3457888999999998887 3332222223333343 6666666655553222 2211 111111111 0   001  


Q ss_pred             --cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH----hc
Q 038490          236 --VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKA----GRKNEFPAILKEMKERGCKPNSVTYNALISGF----CK  305 (344)
Q Consensus       236 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~----~~  305 (344)
                        ..+...+...+.+....|   +......|-..|...    .+++.|...+......+   ...+|| +...+    .-
T Consensus       450 ~~~~~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~n-lg~~~e~g~g~  522 (552)
T KOG1550|consen  450 GVISTLERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFN-LGYMHEHGEGI  522 (552)
T ss_pred             ccccchhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhh-hhhHHhcCcCc
Confidence              124455556666555544   444444444444332    24566777777666654   223333 22111    12


Q ss_pred             cCCHHHHHHHHHHHhhC
Q 038490          306 EEDFEAAFTILDEMGDK  322 (344)
Q Consensus       306 ~~~~~~a~~~~~~~~~~  322 (344)
                      .. +..|.+++++....
T Consensus       523 ~~-~~~a~~~~~~~~~~  538 (552)
T KOG1550|consen  523 KV-LHLAKRYYDQASEE  538 (552)
T ss_pred             ch-hHHHHHHHHHHHhc
Confidence            23 67788888877764

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.53  E-value=1.4  Score=21.86  Aligned_cols=24  Identities=17%  Similarity=0.164  Sum_probs=9.9

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHh
Q 038490           88 NVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      .+...+...|++++|++.|++..+
T Consensus         6 ~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    6 YLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            334444444444444444444433

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.51  E-value=0.54  Score=23.21  Aligned_cols=23  Identities=13%  Similarity=0.167  Sum_probs=12.0

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhh
Q 038490           53 IITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      +..++.+.|++++|.+.|+++..
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH
Confidence            44445555555555555555544

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=89.47  E-value=11  Score=31.31  Aligned_cols=24  Identities=13%  Similarity=0.097  Sum_probs=16.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCC
Q 038490          231 KGLCAVGELSLALGVKEEMVRDKI  254 (344)
Q Consensus       231 ~~~~~~~~~~~a~~~~~~~~~~~~  254 (344)
                      ......|..+.|..+++.+.+.++
T Consensus       162 ~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  162 RFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHCCchHHHHHHHHHHHHHHc
Confidence            334567778888888877777544

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.98  E-value=10  Score=30.19  Aligned_cols=202  Identities=10%  Similarity=0.040  Sum_probs=117.1

Q ss_pred             CCCCchhHHHHHHHH-HHhcccHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHhccC----C
Q 038490           78 RIVPKEIIFCNVIGF-YGRARLLERALQMFDEMSSFNVQMTV---KFFNTLLNPKLTCGKLDRMKELFQIMEKYV----S  149 (344)
Q Consensus        78 ~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~  149 (344)
                      +..||...=+.--.. -.+....++|+.-|++..+..-....   .....++..+.+.+++++....+.++....    .
T Consensus        21 ~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVT  100 (440)
T KOG1464|consen   21 NSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVT  100 (440)
T ss_pred             CCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            346666544332211 12455788999999988865322222   345567788888999999888887764321    1


Q ss_pred             --CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC-----CCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCC--
Q 038490          150 --PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR-----RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVK--  220 (344)
Q Consensus       150 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--  220 (344)
                        -+..+.|.++..-+.+.+.+.-...++.-.+.     +-+.=-.|-+.+...|...+.+.+..++++++.++....  
T Consensus       101 rNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edG  180 (440)
T KOG1464|consen  101 RNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDG  180 (440)
T ss_pred             ccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccC
Confidence              34456677777766666666655555543321     111112334566677778888888888887765432211  


Q ss_pred             --------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHH----HHHHHcCCcCcHHH
Q 038490          221 --------PDGQVFASLIKGLCAVGELSLALGVKEEMVRDK-IEMDAGIYSSLI----SALFKAGRKNEFPA  279 (344)
Q Consensus       221 --------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~----~~~~~~g~~~~a~~  279 (344)
                              .-..+|..=|+.|....+-.+...++++..... --|.+.....+-    .+..+.|++++|..
T Consensus       181 edD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  181 EDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             chhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHh
Confidence                    112456666777777777777777777765421 223444433222    12344566666543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.87  E-value=13  Score=31.22  Aligned_cols=194  Identities=12%  Similarity=0.106  Sum_probs=99.5

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHH
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNV----QMTVKFFNTLLNPK  128 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~  128 (344)
                      .+.+.-+.|+++...+........   .++...+..+...  +.++++++....+.....-.    ......|.......
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~---~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l   78 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED---SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSL   78 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC---ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            356777888988866666555432   2455555555544  78888888888877754210    01111222222222


Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh-----hCChh---HHHHHHHHHhh--CCCCcCHhhHHHHHHHHH
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV-----SRRLE---DAWKVFDEMVK--RRLQPTLVTFGTLIYGLC  198 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~---~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~  198 (344)
                      .+...+.+..++.+-..... .+......++..+..     ..+++   ..+.+=..+..  ........++..+...+.
T Consensus        79 ~~lq~L~Elee~~~~~~~~~-~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aR  157 (352)
T PF02259_consen   79 VKLQQLVELEEIIELKSNLS-QNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLAR  157 (352)
T ss_pred             HHHhHHHHHHHHHHHHHhhc-ccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Confidence            22222222222222221100 001111122221111     11111   11111111111  112335567888889999


Q ss_pred             hhchHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          199 LELRVDEALKLKEDIMRVYNV--KPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +.|.++.|...+..+.+....  ...+.+...-+...-..|+..+|...++.....
T Consensus       158 k~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  158 KAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999987653210  113344444566677889999999999988873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=88.85  E-value=5.5  Score=29.52  Aligned_cols=28  Identities=18%  Similarity=0.217  Sum_probs=13.3

Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGL  197 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  197 (344)
                      +++|...|++..+.  .|+...|+.-+...
T Consensus        96 F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   96 FEKATEYFQKAVDE--DPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            34444455554443  56666666555443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>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=88.43  E-value=37  Score=36.01  Aligned_cols=295  Identities=12%  Similarity=0.007  Sum_probs=154.0

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      ++.+-.+.+.+.+|+..|++-....        ..-.-....|..+...|...+++|...-+...-..    .|+   +.
T Consensus      1389 La~aSfrc~~y~RalmylEs~~~~e--------k~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a----~~s---l~ 1453 (2382)
T KOG0890|consen 1389 LARASFRCKAYARALMYLESHRSTE--------KEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA----DPS---LY 1453 (2382)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcccc--------chhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc----Ccc---HH
Confidence            4445566788888998888741110        01111233344455589999999998888764222    122   22


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHH-HHHHHHHhhC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYN-ILIHGCVVSR  166 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~  166 (344)
                      .-|......|++..|...|+.+.+.+ ++....++.++......|.+..+....+-......+....++ .-+.+-.+.+
T Consensus      1454 ~qil~~e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~ 1532 (2382)
T KOG0890|consen 1454 QQILEHEASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLS 1532 (2382)
T ss_pred             HHHHHHHhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhc
Confidence            34445567899999999999999886 555777777777777777777776655555443332222222 2233335555


Q ss_pred             ChhHHHHHHH--------------HHhhCCCCcCHhhHHHHH-----------HHHHhhchHHHHHHHHHHHH-------
Q 038490          167 RLEDAWKVFD--------------EMVKRRLQPTLVTFGTLI-----------YGLCLELRVDEALKLKEDIM-------  214 (344)
Q Consensus       167 ~~~~a~~~~~--------------~~~~~~~~~~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~~-------  214 (344)
                      +++.......              .+... .+-|...+..++           .++...|.+..+.++.-++.       
T Consensus      1533 qwD~~e~~l~~~n~e~w~~~~~g~~ll~~-~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~ 1611 (2382)
T KOG0890|consen 1533 QWDLLESYLSDRNIEYWSVESIGKLLLRN-KKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELEN 1611 (2382)
T ss_pred             chhhhhhhhhcccccchhHHHHHHHHHhh-cccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHHH
Confidence            5555544432              00000 011111110011           11222222222222211110       


Q ss_pred             ---HhcCCCCCHH------HHHHHHHHHHhcCChHHHHHHHH-HHHHCCCCC-----CHHHHHHHHHHHHHcCCcCcHHH
Q 038490          215 ---RVYNVKPDGQ------VFASLIKGLCAVGELSLALGVKE-EMVRDKIEM-----DAGIYSSLISALFKAGRKNEFPA  279 (344)
Q Consensus       215 ---~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~a~~  279 (344)
                         ...++.++..      -|..-+..-....+..+-+--++ .+......|     -..+|-...+.....|.++.|..
T Consensus      1612 ~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~n 1691 (2382)
T KOG0890|consen 1612 SIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQN 1691 (2382)
T ss_pred             HHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHH
Confidence               0011122111      11111111001111111111111 111111111     34568888888888999999998


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          280 ILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       280 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      .+-...+.+   -+..+-.......+.|+...|+.++++..+.
T Consensus      1692 all~A~e~r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~ 1731 (2382)
T KOG0890|consen 1692 ALLNAKESR---LPEIVLERAKLLWQTGDELNALSVLQEILSK 1731 (2382)
T ss_pred             HHHhhhhcc---cchHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            887777765   2345666777888999999999999998854

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.22  E-value=23  Score=33.37  Aligned_cols=195  Identities=15%  Similarity=0.097  Sum_probs=105.1

Q ss_pred             HHhcCChHHHHHHHHHHhccCC-CCcc-------cHHHHHH-HHHhhCChhHHHHHHHHHhhC----CCCcCHhhHHHHH
Q 038490          128 KLTCGKLDRMKELFQIMEKYVS-PDAC-------SYNILIH-GCVVSRRLEDAWKVFDEMVKR----RLQPTLVTFGTLI  194 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~-~~~~-------~~~~l~~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  194 (344)
                      .....++++|..+..++...-+ |+..       .|+.+-. .....|+++.|+++.+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            3456889999999988765543 2221       2333322 234568889999888877654    2233445566666


Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHH---HH--HHHHHhcCChH--HHHHHHHHHHHC---CC---CCCHHHH
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFA---SL--IKGLCAVGELS--LALGVKEEMVRD---KI---EMDAGIY  261 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~l--~~~~~~~~~~~--~a~~~~~~~~~~---~~---~~~~~~~  261 (344)
                      .+..-.|++++|..+.++..+.. -.-++..+.   .+  ...+...|+..  +....+......   ..   .+-..++
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a-~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMA-RQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHH-HHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            77777899999999887754431 122322222   22  22344566332  223333333221   00   1123445


Q ss_pred             HHHHHHHHHcC-CcCcHHHHHHHHHHcCCCCChhhH--HHHHHHHhccCCHHHHHHHHHHHhhCC
Q 038490          262 SSLISALFKAG-RKNEFPAILKEMKERGCKPNSVTY--NALISGFCKEEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       262 ~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~p~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~  323 (344)
                      ..+..++.+.. ...++..-++-.......|-....  ..|+......|+.++|...++++....
T Consensus       584 ~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~  648 (894)
T COG2909         584 AQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLL  648 (894)
T ss_pred             HHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Confidence            55555555521 111222222222222222222222  256677888999999999999997543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.15  E-value=7.3  Score=29.94  Aligned_cols=59  Identities=8%  Similarity=0.032  Sum_probs=35.3

Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      +..++.+.+.+...+++...+.-.+.. +.+...-..+++.++-.|+|++|..-++..-.
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~   63 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT   63 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhh
Confidence            344555556666666666666665554 44555556666666666666666665555443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.44  E-value=19  Score=31.62  Aligned_cols=179  Identities=13%  Similarity=0.092  Sum_probs=123.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHH
Q 038490          115 QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI  194 (344)
Q Consensus       115 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  194 (344)
                      +.|.....+++..+.....+.-++.+..+|...+ .+...+..++.+|... ..+.-..+|+++.+..+. |.+.-..+.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~-e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG-ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc-chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            5566778889999999999999999999988754 5667888999999988 677788899988887544 444444455


Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCC------HHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHH
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPD------GQVFASLIKGLCAVGELSLALGVKEEMVR-DKIEMDAGIYSSLISA  267 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~  267 (344)
                      .- ...++...+..+|..+....  -|-      ...|..+...  -..+.+....+...+.. .|...-...+.-+-.-
T Consensus       140 ~~-yEkik~sk~a~~f~Ka~yrf--I~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         140 DK-YEKIKKSKAAEFFGKALYRF--IPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HH-HHHhchhhHHHHHHHHHHHh--cchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence            44 44588888888888876532  221      1244444432  13466777777777665 3444445556666678


Q ss_pred             HHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038490          268 LFKAGRKNEFPAILKEMKERGCKPNSVTYNALISG  302 (344)
Q Consensus       268 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  302 (344)
                      |....++++|++++..+.+..-+ |...-..++.-
T Consensus       215 Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~  248 (711)
T COG1747         215 YSENENWTEAIRILKHILEHDEK-DVWARKEIIEN  248 (711)
T ss_pred             hccccCHHHHHHHHHHHhhhcch-hhhHHHHHHHH
Confidence            88899999999999988776433 44444444433

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.31  E-value=1.8  Score=23.53  Aligned_cols=24  Identities=21%  Similarity=0.396  Sum_probs=12.9

Q ss_pred             HHHHHHhhCChhHHHHHHHHHhhC
Q 038490          158 LIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      +..+|...|+.+.|.+++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            445555555555555555555543

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.

>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=87.30  E-value=11  Score=28.60  Aligned_cols=80  Identities=11%  Similarity=-0.004  Sum_probs=49.6

Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCCh
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN--VKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      +.+.| -+.|.+.|-++...+.--++.....+. .|....+.+++..++.++++...  -.+|+..+..|+..+.+.|++
T Consensus       117 Wsr~~-d~~A~~~fL~~E~~~~l~t~elq~aLA-tyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFG-DQEALRRFLQLEGTPELETAELQYALA-TYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccC-cHHHHHHHHHHcCCCCCCCHHHHHHHH-HHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            33434 345666666666665544544444444 44446677777777777665432  245677788888888888877


Q ss_pred             HHHH
Q 038490          240 SLAL  243 (344)
Q Consensus       240 ~~a~  243 (344)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            7764

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=86.45  E-value=9.8  Score=27.17  Aligned_cols=49  Identities=6%  Similarity=0.286  Sum_probs=23.7

Q ss_pred             ChhhHHHHHHHHhccCC-HHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          292 NSVTYNALISGFCKEED-FEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       292 ~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      +...|..++.+..+..- ---+..+|.-|.+.+.++++.-|..+++++.+
T Consensus        78 ~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~  127 (145)
T PF13762_consen   78 DNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALR  127 (145)
T ss_pred             ccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Confidence            33445555555544333 22344445555544555555555555555543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.28  E-value=16  Score=29.50  Aligned_cols=118  Identities=11%  Similarity=0.214  Sum_probs=81.7

Q ss_pred             hCChhHHHHHHHHHhh-CCCCcCHhhHHHHHHHHHh-hc-hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          165 SRRLEDAWKVFDEMVK-RRLQPTLVTFGTLIYGLCL-EL-RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      ...+.+|+++|+.... ..+--|......+++.... .+ ....-.++.+-+....+-.++..+...++..+++.+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3446677777774322 2344577777777776655 22 2333334444555555667788888889999999999999


Q ss_pred             HHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCcCcHHHHHH
Q 038490          242 ALGVKEEMVRD-KIEMDAGIYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       242 a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      -.++++..... ++.-|...|..+++.....|+..-...+.+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            99998888765 566688899999999999998755555544

>KOG3807 consensus Predicted membrane protein ST7 (tumor suppressor in humans) [General function prediction only]

Probab=86.15  E-value=18  Score=29.84  Aligned_cols=60  Identities=17%  Similarity=0.137  Sum_probs=35.6

Q ss_pred             HHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          193 LIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       193 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +..+..+.|+..+|.+.+++++++..+..-..+...++.++....-+.....++.+..+.
T Consensus       281 LAMCARklGrlrEA~K~~RDL~ke~pl~t~lniheNLiEalLE~QAYADvqavLakYDdi  340 (556)
T KOG3807|consen  281 LAMCARKLGRLREAVKIMRDLMKEFPLLTMLNIHENLLEALLELQAYADVQAVLAKYDDI  340 (556)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            444445678888888888887765432222234456666666666666665555555443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.10  E-value=5.8  Score=31.89  Aligned_cols=72  Identities=10%  Similarity=-0.003  Sum_probs=45.3

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHH----HHhcCCCCCHHHH
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDI----MRVYNVKPDGQVF  226 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~  226 (344)
                      +++...+.|..+|.+.+|.++.++....+ +.+...+-.++..+...|+--.+.+.++++    ....|+..+..++
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            44556677777888888888777776652 446666777777777777755555555443    2234555554443

>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=85.91  E-value=5.2  Score=26.65  Aligned_cols=82  Identities=11%  Similarity=0.065  Sum_probs=31.2

Q ss_pred             CchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490           62 MFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELF  141 (344)
Q Consensus        62 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  141 (344)
                      ..++|..|.+.+....+  ....+--.-+..+...|++++|   +..-... ..||...|..|-  -.+.|-.+++...+
T Consensus        21 cH~EA~tIa~wL~~~~~--~~E~v~lIr~~sLmNrG~Yq~A---Ll~~~~~-~~pdL~p~~AL~--a~klGL~~~~e~~l   92 (116)
T PF09477_consen   21 CHQEANTIADWLEQEGE--MEEVVALIRLSSLMNRGDYQEA---LLLPQCH-CYPDLEPWAALC--AWKLGLASALESRL   92 (116)
T ss_dssp             -HHHHHHHHHHHHHTTT--THHHHHHHHHHHHHHTT-HHHH---HHHHTTS---GGGHHHHHHH--HHHCT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHHhhHHHHHH---HHhcccC-CCccHHHHHHHH--HHhhccHHHHHHHH
Confidence            44555555555554321  1111111222334455555555   1111111 134444443332  24455555555555


Q ss_pred             HHHhccCCCC
Q 038490          142 QIMEKYVSPD  151 (344)
Q Consensus       142 ~~~~~~~~~~  151 (344)
                      .++...+.|.
T Consensus        93 ~rla~~g~~~  102 (116)
T PF09477_consen   93 TRLASSGSPE  102 (116)
T ss_dssp             HHHCT-SSHH
T ss_pred             HHHHhCCCHH
Confidence            5555444433

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.

>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=85.88  E-value=2  Score=21.28  Aligned_cols=27  Identities=7%  Similarity=0.052  Sum_probs=15.4

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhh
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      +|..+...+...|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345555556666666666666655544

...

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=85.59  E-value=24  Score=30.82  Aligned_cols=127  Identities=11%  Similarity=0.034  Sum_probs=87.5

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG  132 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  132 (344)
                      -|.-....|+.-.|-+-+....+...-.|+...  .....+...|+++.+.+.+...... +.....+...+++.....|
T Consensus       295 si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~--l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~  371 (831)
T PRK15180        295 SITKQLADGDIIAASQQLFAALRNQQQDPVLIQ--LRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLA  371 (831)
T ss_pred             HHHHHhhccCHHHHHHHHHHHHHhCCCCchhhH--HHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchh
Confidence            344555678877776655555544222344333  3344567889999999988776543 2445667888999999999


Q ss_pred             ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC
Q 038490          133 KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR  182 (344)
Q Consensus       133 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  182 (344)
                      +++.|...-..|......+..........--..|-++++...|++....+
T Consensus       372 r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        372 RWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             hHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            99999999998887655555555444444556677899999999887654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.21  E-value=6.3  Score=32.47  Aligned_cols=90  Identities=10%  Similarity=0.083  Sum_probs=57.4

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG  132 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  132 (344)
                      ..-|.+.|.+++|++.|......   .| +..++..-..+|.+...+..|+.-.......+ ..-+..|..-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~---~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV---YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc---CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHh
Confidence            34577889999999999887763   35 77888888889999998888877777666543 111222333333333344


Q ss_pred             ChHHHHHHHHHHhcc
Q 038490          133 KLDRMKELFQIMEKY  147 (344)
Q Consensus       133 ~~~~a~~~~~~~~~~  147 (344)
                      ...+|.+-++.....
T Consensus       180 ~~~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  180 NNMEAKKDCETVLAL  194 (536)
T ss_pred             hHHHHHHhHHHHHhh
Confidence            555555555544443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=85.11  E-value=6.5  Score=27.09  Aligned_cols=48  Identities=4%  Similarity=0.134  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC
Q 038490          102 ALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus       102 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      ..+.++.+..-++.|++.+...-++++-+.+|+..|.++|+-++....
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~g  115 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDKCG  115 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhcc
Confidence            444555555566667777777777777777777777777776665444

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=85.02  E-value=16  Score=28.23  Aligned_cols=185  Identities=12%  Similarity=0.045  Sum_probs=108.8

Q ss_pred             hcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHH
Q 038490          130 TCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKL  209 (344)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (344)
                      ..|-+..|.-=|.......|.-+..||-+.-.+...|+++.|.+.|+...+.+..-+-...|.-| ++.-.|++.-|.+-
T Consensus        77 SlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d  155 (297)
T COG4785          77 SLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDD  155 (297)
T ss_pred             hhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHH
Confidence            34555555555665555556667789999999999999999999999998874332222222222 34457888888877


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          210 KEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKE-EMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      +...-+...-.|-...|--+..   ..-++.+|..-+. +...    .|..-|...+..|.- |.+ ....+++++....
T Consensus       156 ~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yL-gki-S~e~l~~~~~a~a  226 (297)
T COG4785         156 LLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYL-GKI-SEETLMERLKADA  226 (297)
T ss_pred             HHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHH-hhc-cHHHHHHHHHhhc
Confidence            7666655433343334433332   3345666655443 3332    244444433332221 222 1233444443321


Q ss_pred             CC------CChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCC
Q 038490          289 CK------PNSVTYNALISGFCKEEDFEAAFTILDEMGDKGC  324 (344)
Q Consensus       289 ~~------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  324 (344)
                      -.      .-..||--+..-+...|+.++|..+|+-.+..++
T Consensus       227 ~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         227 TDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            10      0124667778888899999999999998876543

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=84.60  E-value=32  Score=31.42  Aligned_cols=92  Identities=11%  Similarity=0.012  Sum_probs=33.7

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGL  233 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  233 (344)
                      .|..-+..+..+++..  ...++.+..+-.-.+......++..|.+.|-.+.+..+.+.+-...   ....-|..-+..+
T Consensus       374 lW~vai~yL~~c~~~g--~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~---~~~~~~g~AL~~~  448 (566)
T PF07575_consen  374 LWQVAIGYLSSCPDEG--RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRL---LKEGRYGEALSWF  448 (566)
T ss_dssp             THHHHHHHHHS-SSS---HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHH---HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCChhh--HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH---HHCCCHHHHHHHH
Confidence            3444444443333222  3344444443223344455566667777777777766666543321   1123344445555


Q ss_pred             HhcCChHHHHHHHHHHH
Q 038490          234 CAVGELSLALGVKEEMV  250 (344)
Q Consensus       234 ~~~~~~~~a~~~~~~~~  250 (344)
                      .+.|+......+.+.+.
T Consensus       449 ~ra~d~~~v~~i~~~ll  465 (566)
T PF07575_consen  449 IRAGDYSLVTRIADRLL  465 (566)
T ss_dssp             H----------------
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            56666555554444444

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.55  E-value=19  Score=28.77  Aligned_cols=186  Identities=11%  Similarity=0.070  Sum_probs=116.7

Q ss_pred             hcCCchHHHHHHHHhhhcCCCCCc--hhHHHHHHHHHHhcccHHHHHHHHHHHHh---cCC--CCCHHHHHHHHHHHHhc
Q 038490           59 RAKMFDEMQQILHQLKHDTRIVPK--EIIFCNVIGFYGRARLLERALQMFDEMSS---FNV--QMTVKFFNTLLNPKLTC  131 (344)
Q Consensus        59 ~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~  131 (344)
                      +...+++|+.-|++..+..|-+.+  -..+..++....+.+++++....|.+++.   ..+  .-+....|+++..-...
T Consensus        39 ~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   39 KEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             cccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            445889999999998875443322  24556788999999999999999988863   111  23445677777766666


Q ss_pred             CChHHHHHHHHHHhccCC--CCcc----cHHHHHHHHHhhCChhHHHHHHHHHhhCCC----CcC-------HhhHHHHH
Q 038490          132 GKLDRMKELFQIMEKYVS--PDAC----SYNILIHGCVVSRRLEDAWKVFDEMVKRRL----QPT-------LVTFGTLI  194 (344)
Q Consensus       132 ~~~~~a~~~~~~~~~~~~--~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-------~~~~~~l~  194 (344)
                      .+.+....+++.-.+.-.  .+..    |-.-|...|...|++.+..+++.++...-.    .-|       ...|..-|
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            666555555543322110  2222    234567788888888888888888765311    111       23465666


Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH----HHhcCChHHHHH
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKG----LCAVGELSLALG  244 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~~~~~~a~~  244 (344)
                      ..|....+-..-..++++.+.-...-|.+.+...+-.+    ..+.|++++|..
T Consensus       199 QmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHh
Confidence            77777777777777787776655556766665544332    234567776654

>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=84.54  E-value=3.5  Score=20.37  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=13.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          226 FASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       226 ~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      |..+...+...|++++|...|++..+
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444555555555555555555544

...

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=84.46  E-value=7.4  Score=26.84  Aligned_cols=47  Identities=9%  Similarity=0.048  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +..+-+..+...++.|++.+...-+++|.+.+|+..|.++|+-++.+
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            34444555555566666666666666666666666666666666544

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.05  E-value=36  Score=31.66  Aligned_cols=155  Identities=13%  Similarity=0.055  Sum_probs=86.7

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      -+.-+.+.+.+++|+++-+......        +.+. -...+..+|..+.-.|++++|-...-.|...     +..-|.
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~~~--------~~~~-i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn-----~~~eWe  427 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIGNE--------ERFV-IKKVGKTYIDHLLFEGKYDEAASLCPKMLGN-----NAAEWE  427 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccCCc--------cccc-hHHHHHHHHHHHHhcchHHHHHhhhHHHhcc-----hHHHHH
Confidence            3455667788888888887763322        1111 3456777888888888888888887777643     344455


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHh--------------cc---CCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIME--------------KY---VSP  150 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------------~~---~~~  150 (344)
                      ..+..+...++...   ++.-+.......+..+|..++..+.. .+...-.+......              ..   ...
T Consensus       428 ~~V~~f~e~~~l~~---Ia~~lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se  503 (846)
T KOG2066|consen  428 LWVFKFAELDQLTD---IAPYLPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSE  503 (846)
T ss_pred             HHHHHhccccccch---hhccCCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhcc
Confidence            55555544444432   22222222212345667777766665 22222222211110              00   011


Q ss_pred             CcccHHHHHHHHHhhCChhHHHHHHHHHhh
Q 038490          151 DACSYNILIHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      +...-..|+..|...+++..|.+++-...+
T Consensus       504 ~~~L~e~La~LYl~d~~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  504 STALLEVLAHLYLYDNKYEKALPIYLKLQD  533 (846)
T ss_pred             chhHHHHHHHHHHHccChHHHHHHHHhccC
Confidence            223344588888999999999888876653

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=83.50  E-value=24  Score=29.09  Aligned_cols=134  Identities=13%  Similarity=0.091  Sum_probs=72.0

Q ss_pred             CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCCH
Q 038490          183 LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVR----DKIEMDA  258 (344)
Q Consensus       183 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~  258 (344)
                      +..|...++.+..+  +..+.++-.+..+...+..|-..-...+......|++.|+.+.|.+.++...+    .|.+.|+
T Consensus        66 i~~D~~~l~~m~~~--neeki~eld~~iedaeenlGE~ev~ea~~~kaeYycqigDkena~~~~~~t~~ktvs~g~kiDV  143 (393)
T KOG0687|consen   66 IKLDQDLLNSMKKA--NEEKIKELDEKIEDAEENLGESEVREAMLRKAEYYCQIGDKENALEALRKTYEKTVSLGHKIDV  143 (393)
T ss_pred             eeccHHHHHHHHHh--hHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcccchhh
Confidence            44455555554432  22333444444444333333333345566677788888888888877766544    4666665


Q ss_pred             HHHHHHH-HHHHHcCCcCcHHHHHHHHHHcCCCCChh----hHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          259 GIYSSLI-SALFKAGRKNEFPAILKEMKERGCKPNSV----TYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       259 ~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      ..+.+=+ -.|....-+.+-++..+.+.+.|...+..    +|..+-  +....++.+|-.+|-+..
T Consensus       144 vf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly--~msvR~Fk~Aa~Lfld~v  208 (393)
T KOG0687|consen  144 VFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLY--CMSVRNFKEAADLFLDSV  208 (393)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHH--HHHHHhHHHHHHHHHHHc
Confidence            5544322 23334444455566666666666544432    333332  234557777777776665

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.27  E-value=17  Score=30.09  Aligned_cols=89  Identities=9%  Similarity=-0.018  Sum_probs=58.6

Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      +-|.+.|.+++|...|.......+.+..++..-..+|.+...+..|+.-.......+ ..-...|+.-+.+-...|...+
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            347788889999999988877766688888888888888888887776666655432 1112234444444444556666


Q ss_pred             HHHHHHHHHH
Q 038490          206 ALKLKEDIMR  215 (344)
Q Consensus       206 a~~~~~~~~~  215 (344)
                      |.+=++.+++
T Consensus       184 AKkD~E~vL~  193 (536)
T KOG4648|consen  184 AKKDCETVLA  193 (536)
T ss_pred             HHHhHHHHHh
Confidence            6665555554

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.23  E-value=6.5  Score=29.80  Aligned_cols=33  Identities=12%  Similarity=-0.008  Sum_probs=19.1

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      .|++.+|..++.++...|+.++|.++..++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455555555555556666666665555555543

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PRK10941 hypothetical protein; Provisional

Probab=82.19  E-value=23  Score=28.56  Aligned_cols=78  Identities=9%  Similarity=-0.016  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC-CCCcCHhhHHHHHHHH
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR-RLQPTLVTFGTLIYGL  197 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  197 (344)
                      ..+.+-.+|.+.++++.|+++.+.+....|.+..-+.--.-.|.+.|.+..|..=++...+. .-.|+.......+...
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~ik~ql~~l  261 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMIRAQIHSI  261 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHHHHHHHHH
Confidence            34556667778888888888888887777766666666677788888888888877777654 2334444444444443

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=81.58  E-value=7  Score=21.68  Aligned_cols=33  Identities=18%  Similarity=0.255  Sum_probs=21.4

Q ss_pred             hccCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 038490          304 CKEEDFEAAFTILDEMGDKGCKANPISYNVILG  336 (344)
Q Consensus       304 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  336 (344)
                      .+.|-..++..++++|.+.|+..+...+..+++
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            355666666667777777776666666666654

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.55  E-value=13  Score=24.59  Aligned_cols=51  Identities=12%  Similarity=0.096  Sum_probs=23.4

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFN  113 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  113 (344)
                      .+...|++++|..+.+.+     ..||...|.+|...  +.|..+++..-+..|...|
T Consensus        48 SLmNrG~Yq~Al~l~~~~-----~~pdlepw~ALce~--rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKL-----CYPDLEPWLALCEW--RLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHHccchHHHHHHhcCCC-----CCchHHHHHHHHHH--hhccHHHHHHHHHHHHhCC
Confidence            344455555555544433     13444444443322  4454454444444444444

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=81.37  E-value=26  Score=28.16  Aligned_cols=130  Identities=8%  Similarity=-0.040  Sum_probs=76.1

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcC----CCCCch--------hHHHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDT----RIVPKE--------IIFCNVIGFYGRARLLERALQMFDEMSSFN  113 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  113 (344)
                      -+.......+.+.-..+|..|++.-++-.+.-    +...+.        .....-|.+++..++|.+++...-..-+.-
T Consensus        34 a~~lLe~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~p  113 (309)
T PF07163_consen   34 AVSLLEEAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVP  113 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCc
Confidence            34445555556666678888888777654421    011111        112234677778888888777665554322


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHHHHHHh-----hCChhHHHHHH
Q 038490          114 VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILIHGCVV-----SRRLEDAWKVF  175 (344)
Q Consensus       114 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~-----~~~~~~a~~~~  175 (344)
                      -+....+...-|-.|.+.++...+.++-....+... .+..-|..++..|..     .|.+++|+++.
T Consensus       114 EklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  114 EKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             ccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            122334455556667788888777777776655433 344447776666654     57777777776

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

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=80.98  E-value=25  Score=27.62  Aligned_cols=83  Identities=12%  Similarity=-0.029  Sum_probs=40.7

Q ss_pred             HHhcCCchHHHHHHHHhhhcCCCCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHhcCCh
Q 038490           57 LGRAKMFDEMQQILHQLKHDTRIVPKE-IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVK-FFNTLLNPKLTCGKL  134 (344)
Q Consensus        57 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~  134 (344)
                      |.....++.|+.-|.+.+.   +.|+. .-|..=+-++.+..+++.+..--...++.  .|+.. ....+-........+
T Consensus        20 ~f~~k~y~~ai~~y~raI~---~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql--~~N~vk~h~flg~~~l~s~~~   94 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAIC---INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQL--DPNLVKAHYFLGQWLLQSKGY   94 (284)
T ss_pred             ccchhhhchHHHHHHHHHh---cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhc--ChHHHHHHHHHHHHHHhhccc
Confidence            3344556666665555544   23444 33344455555566666655555554443  23322 223333444455555


Q ss_pred             HHHHHHHHHH
Q 038490          135 DRMKELFQIM  144 (344)
Q Consensus       135 ~~a~~~~~~~  144 (344)
                      +.|...+.+.
T Consensus        95 ~eaI~~Lqra  104 (284)
T KOG4642|consen   95 DEAIKVLQRA  104 (284)
T ss_pred             cHHHHHHHHH
Confidence            6666555554

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=80.83  E-value=28  Score=28.06  Aligned_cols=91  Identities=10%  Similarity=-0.028  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHH
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLC  198 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  198 (344)
                      .+..=|++++..++|.++..+.-+.-+... .........|-.|.+.++...+.++-..-...--.-+...|..++..|.
T Consensus        85 LcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyL  164 (309)
T PF07163_consen   85 LCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYL  164 (309)
T ss_pred             hhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHH
Confidence            344557899999999999887765544332 4556677788899999999999988888776533334445777766655


Q ss_pred             h-----hchHHHHHHHH
Q 038490          199 L-----ELRVDEALKLK  210 (344)
Q Consensus       199 ~-----~~~~~~a~~~~  210 (344)
                      .     .|.+++|+++.
T Consensus       165 l~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  165 LHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHhccccHHHHHHHH
Confidence            4     69999998887

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=80.73  E-value=14  Score=28.05  Aligned_cols=33  Identities=21%  Similarity=0.226  Sum_probs=19.5

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          220 KPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      .|+..+|..++.++...|+.++|.+..+++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            556666666666666666666666655555544

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=80.67  E-value=33  Score=31.67  Aligned_cols=29  Identities=31%  Similarity=0.407  Sum_probs=14.8

Q ss_pred             hHHHHHHHHHHh---cccHHHHHHHHHHHHhc
Q 038490           84 IIFCNVIGFYGR---ARLLERALQMFDEMSSF  112 (344)
Q Consensus        84 ~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  112 (344)
                      .-+..||..|.+   ..+..+|.++|-.+...
T Consensus       325 ln~arLI~~Y~~~F~~td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  325 LNFARLIGQYTRSFEITDPREALQYLYLICLF  356 (613)
T ss_dssp             --HHHHHHHHHHTTTTT-HHHHHHHHHGGGGS
T ss_pred             cCHHHHHHHHHHHHhccCHHHHHHHHHHHHHc
Confidence            345556666654   34566666666555543

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.

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=80.66  E-value=1.9  Score=29.93  Aligned_cols=28  Identities=14%  Similarity=0.400  Sum_probs=14.2

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHH
Q 038490          308 DFEAAFTILDEMGDKGCKANPISYNVILGG  337 (344)
Q Consensus       308 ~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  337 (344)
                      .-..|-.+|++|.+.|-+||.  |+.|+..
T Consensus       110 sk~DaY~VF~kML~~G~pPdd--W~~Ll~~  137 (140)
T PF11663_consen  110 SKTDAYAVFRKMLERGNPPDD--WDALLKE  137 (140)
T ss_pred             cCCcHHHHHHHHHhCCCCCcc--HHHHHHH
Confidence            334455555555555555443  5555544

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.47  E-value=44  Score=30.18  Aligned_cols=128  Identities=16%  Similarity=-0.032  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHH
Q 038490          135 DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIM  214 (344)
Q Consensus       135 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (344)
                      +-+-.++..|.....|--...|...-.+.-.|+...|...+.........-..+....+.....+.|-..+|..++.+.+
T Consensus       590 e~~~~~~~~~~~~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l  669 (886)
T KOG4507|consen  590 EIGSFLFHAINKPNAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQAL  669 (886)
T ss_pred             HHHHHHHHHhcCCCCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHH
Confidence            33444555554422233233333333344567777887777766544322233445556666677777777877777766


Q ss_pred             HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 038490          215 RVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLI  265 (344)
Q Consensus       215 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  265 (344)
                      .-.  ...+-++..+.+++....+++.|++.|++..+...+ +...-+.|.
T Consensus       670 ~~~--~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~-~~~~~~~l~  717 (886)
T KOG4507|consen  670 AIN--SSEPLTFLSLGNAYLALKNISGALEAFRQALKLTTK-CPECENSLK  717 (886)
T ss_pred             hhc--ccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCCC-ChhhHHHHH
Confidence            543  333456666777777888888888888888776543 444444443

>PRK09687 putative lyase; Provisional

Probab=80.20  E-value=30  Score=28.12  Aligned_cols=233  Identities=12%  Similarity=0.040  Sum_probs=143.5

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccH----HHHHHHHHHHHhcCCCCCHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLL----ERALQMFDEMSSFNVQMTVKFF  121 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~  121 (344)
                      |.......+.++...|..+ +...+..+...    ++...-...+.+++..|+.    +++...+..+...  .++..+-
T Consensus        36 d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~~----~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR  108 (280)
T PRK09687         36 NSLKRISSIRVLQLRGGQD-VFRLAIELCSS----KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVR  108 (280)
T ss_pred             CHHHHHHHHHHHHhcCcch-HHHHHHHHHhC----CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHH
Confidence            6667777788888887543 44444445442    4666666677778888763    4677777766433  5666666


Q ss_pred             HHHHHHHHhcCCh-----HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHH
Q 038490          122 NTLLNPKLTCGKL-----DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYG  196 (344)
Q Consensus       122 ~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (344)
                      ...+.++...+..     ..+...+......  ++..+-...+.++.+.++ +.+...+-.+.+.   ++...-...+.+
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D--~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~a  182 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAFD--KSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhhC--CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHH
Confidence            6666666655421     2233333332221  355556667777777776 4566666666654   244444444445


Q ss_pred             HHhhc-hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          197 LCLEL-RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       197 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                      +.+.+ ....+...+..++.    .++..+-...+.++.+.|+. .+...+-...+.+   +  .....+.++...|+. 
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~----D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-  251 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ----DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-  251 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc----CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-
Confidence            55432 24456666666554    45777777888888898885 5666666666543   2  234677888888885 


Q ss_pred             cHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          276 EFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       276 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +|...+..+.+.  .||...-...+.++.
T Consensus       252 ~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        252 TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            788888888875  347666666665553

---

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	344
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 74.1 bits (180), Expect = 1e-14
 Identities = 23/133 (17%), Positives = 51/133 (38%), Gaps = 4/133 (3%)

Query: 214 MRVYNVKPDGQVFASLIKGLCAVGELSLA---LGVKEEMVRDKIEMDAGIYSSLISALFK 270
                +    Q   +  K      +L LA   L V     + +  +   +Y++++    +
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 271 AGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK-EEDFEAAFTILDEMGDKGCKANPI 329
            G   E   +L  +K+ G  P+ ++Y A +    + ++D       L++M  +G K   +
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 330 SYNVILGGLCKDG 342
              V+L    +  
Sbjct: 238 FTAVLLSEEDRAT 250

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.4 bits (173), Expect = 1e-13
 Identities = 27/228 (11%), Positives = 59/228 (25%), Gaps = 4/228 (1%)

Query: 70  LHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL 129
           L          P E     ++        L+       + S   +    +         L
Sbjct: 79  LEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL 138

Query: 130 TCGKLDRMKELFQIMEKYVS----PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP 185
              +L     L  +               YN ++ G       ++   V   +    L P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 186 TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV 245
            L+++   +  +  + +    ++   + M    +K      A L+        L     V
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 246 KEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNS 293
           K               S L+  ++    +  +P +   +K   C    
Sbjct: 259 KPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.6 bits (158), Expect = 8e-12
 Identities = 17/174 (9%), Positives = 52/174 (29%), Gaps = 5/174 (2%)

Query: 54  ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFD---EMS 110
           + +    K+  +++Q         ++  ++               L  A  +        
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 111 SFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIM-EKYVSPDACSYNILIHGCV-VSRRL 168
                +T+  +N ++      G    +  +  ++ +  ++PD  SY   +       +  
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 169 EDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD 222
               +  ++M +  L+   +    L+        +    K+K        + P 
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPP 271

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 63.3 bits (152), Expect = 4e-11
 Identities = 16/128 (12%), Positives = 43/128 (33%), Gaps = 3/128 (2%)

Query: 219 VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFP 278
             P  +  A L++       L +      +  + ++        +         +     
Sbjct: 88  ESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAH 147

Query: 279 AIL---KEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVIL 335
            +L      +++        YNA++ G+ ++  F+    +L  + D G   + +SY   L
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207

Query: 336 GGLCKDGK 343
             + +  +
Sbjct: 208 QCMGRQDQ 215

>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 = 53.3 bits (127), Expect = 7e-08
 Identities = 57/422 (13%), Positives = 129/422 (30%), Gaps = 137/422 (32%)

Query: 4   SSIRLACLPRLQKDPKLALQLFKNP-NPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKM 62
           S I+        + P +  +++    +   ND +        YN+           R + 
Sbjct: 96  SPIKTEQ-----RQPSMMTRMYIEQRDRLYNDNQ--VFAK--YNV----------SRLQP 136

Query: 63  FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN 122
           + +++Q L +L+    ++        V+G  G+  +       +      + ++   F+ 
Sbjct: 137 YLKLRQALLELRPAKNVL-----IDGVLGS-GKTWVALDVCLSYKVQCKMDFKI---FWL 187

Query: 123 TLLNPKLTCGKLDRMKELF-QIMEKYVSPDACSYNILIHGCVVSRR-------------- 167
            L N       L+ +++L  QI   + S    S NI +    +                 
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247

Query: 168 --LEDAW-----KVFDEMVKRRLQPTLVT----------FGTLIYGLCLE-----LRVDE 205
             L +         F+   K      L+T                 + L+     L  DE
Sbjct: 248 LVLLNVQNAKAWNAFNLSCK-----ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302

Query: 206 ALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL---GVKEEMVR---------DK 253
              L   +++  + +P       L + +       L++    +++ +           DK
Sbjct: 303 VKSL---LLKYLDCRPQ-----DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354

Query: 254 ----IEM----------------------DAGIYSSLISALFKAGRKNEFPAILKEMK-- 285
               IE                        A I + L+S ++    K++   ++ ++   
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414

Query: 286 ---ERGCKPNSVTYNALISGFCKEEDFEAAF--TILDEMGDKGCKANPISYNVILGGLCK 340
              E+  K ++++  ++      + + E A   +I+D             YN I      
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD------------HYN-IPKTFDS 461

Query: 341 DG 342
           D 
Sbjct: 462 DD 463

>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 = 51.0 bits (121), Expect = 4e-07
 Identities = 53/324 (16%), Positives = 96/324 (29%), Gaps = 96/324 (29%)

Query: 34  DTEAHPLKPFRYN--LLHY-DLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVI 90
           D E    + ++Y   L  + D  +       + D  + IL      ++     II     
Sbjct: 8   DFETGEHQ-YQYKDILSVFEDAFVDNFDCKDVQDMPKSIL------SKEEIDHII----- 55

Query: 91  GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSP 150
                   +   L++F  + S   +M  KF   +L           +    +  ++  S 
Sbjct: 56  ---MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI-----NYKFLMSPIKTEQRQPSM 107

Query: 151 DACSYNILIHGCVVSR-RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKL 209
               Y       +  R RL +  +VF +    RLQP             L+LR  +AL  
Sbjct: 108 MTRMY-------IEQRDRLYNDNQVFAKYNVSRLQPY------------LKLR--QAL-- 144

Query: 210 KEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD---KIEMDAGIYSSLIS 266
                    ++P   V    I G+   G+  +AL V          + +MD  I+     
Sbjct: 145 -------LELRPAKNVL---IDGVLGSGKTWVALDV----CLSYKVQCKMDFKIF----- 185

Query: 267 ALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISG-----------------FCKEEDF 309
                   N    +L EM ++        + +                       K + +
Sbjct: 186 -WLNLKNCNSPETVL-EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243

Query: 310 EAAFTILDEMGDK--------GCK 325
           E    +L  + +          CK
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCK 267

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	344
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.94
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.87
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.77
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.76
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.76
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.74
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.74
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.74
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.73
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.72
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.72
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.72
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.69
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.68
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.68
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.68
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.67
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.67
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.65
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.62
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.61
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.6
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.56
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.55
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.55
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.54
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.47
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.46
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.46
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.45
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.41
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.38
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.37
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.36
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.33
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.33
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.3
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.29
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.29
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.28
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.28
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.28
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.28
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.28
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.27
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.27
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.26
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.25
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.25
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.25
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.2
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.2
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.14
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.12
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.11
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.1
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.1
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.09
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.08
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.07
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.06
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.05
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.05
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.04
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.04
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.03
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.01
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.01
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.0
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.0
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.99
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.99
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.99
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.97
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.97
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.97
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.96
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.95
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.95
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.94
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.94
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.93
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.91
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.91
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.9
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.9
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.89
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.89
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.88
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.86
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.85
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.85
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.84
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.82
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.82
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.79
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.78
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.78
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.78
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.77
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.77
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.76
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.76
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.73
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.73
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.7
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.68
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.68
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.66
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.66
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.64
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.62
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.6
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.59
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.59
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.55
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.5
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.5
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.48
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.47
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.47
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.47
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.45
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.44
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.43
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.43
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.42
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.37
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.3
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.24
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.24
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.23
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.2
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.15
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.14
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.08
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.07
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.07
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.07
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.05
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.05
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.05
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.0
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.97
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.83
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.71
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.58
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.51
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.49
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.42
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.24
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.14
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.11
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.1
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.09
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.08
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.96
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.96
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.91
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.91
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.89
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	96.83
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.77
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.73
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.73
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.67
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.45
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.41
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.3
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.29
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.09
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.71
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.47
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.39
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.22
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.09
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.08
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.77
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.76
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.48
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.36
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.21
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.11
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	94.04
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.69
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.53
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.79
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	92.45
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.4
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.13
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.02
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	90.94
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.38
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.92
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.28
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.67
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.2
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.08
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	87.58
2p58_C	116	Putative type III secretion protein YSCG; type III	85.55
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.66
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	82.73
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	82.67
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	82.17
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	81.51
4gq2_M	950	Nucleoporin NUP120; beta propeller alpha helical,	80.85

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4.6e-35  Score=251.85  Aligned_cols=186  Identities=13%  Similarity=0.200  Sum_probs=126.5

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc---------hHHHHHHHHHHHHHhcCCCCCHH
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL---------RVDEALKLKEDIMRVYNVKPDGQ  224 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~~~~~~~~~~~~  224 (344)
                      .++.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.+         ..+.|.++|++|.+ .|+.||..
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~-~G~~Pd~~  106 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV-DKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHH-TTCCCCHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHH-hCCCCCHH
Confidence            456666666666666666666666666666666666666666665433         35666667766443 36667777


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||++||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             ccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          305 KEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       305 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      +.|++++|.+++++|.+.|..|+..||+.++..|+.
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777766677777777766666654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4.3e-34  Score=245.85  Aligned_cols=213  Identities=14%  Similarity=0.237  Sum_probs=154.3

Q ss_pred             HHHHHHHhhhcCCCCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490           66 MQQILHQLKHDTRIVPKE-IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIM  144 (344)
Q Consensus        66 a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  144 (344)
                      +..+.+.+.+. +..+.+ ..++.+|++|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.+....+       
T Consensus         9 ~e~L~~~~~~k-~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            9 SENLSRKAKKK-AIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             HHHHHHHHHHh-cccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            44445555544 344433 457888899999999999999999999999999999999999888876643211       


Q ss_pred             hccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHH
Q 038490          145 EKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ  224 (344)
Q Consensus       145 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  224 (344)
                                        .+.+.+++|.++|++|...|+.||..||+.+|.+|++.|++++|.++|++|.+ .|+.||..
T Consensus        81 ------------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-~g~~Pd~~  141 (501)
T 4g26_A           81 ------------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKA-FGIQPRLR  141 (501)
T ss_dssp             ------------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TTCCCCHH
T ss_pred             ------------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCccc
Confidence                              12344667777788887778888888888888888888888888888877543 47778888


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.+++++|++.|..|+..||+.++..|.
T Consensus       142 tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          142 SYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             eehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            88888888888888888888888888888888888888888888888888888888888888777888888887777776


Q ss_pred             c
Q 038490          305 K  305 (344)
Q Consensus       305 ~  305 (344)
                      .
T Consensus       222 s  222 (501)
T 4g26_A          222 S  222 (501)
T ss_dssp             S
T ss_pred             c
Confidence            4

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.4e-32  Score=242.56  Aligned_cols=333  Identities=11%  Similarity=-0.002  Sum_probs=285.1

Q ss_pred             CchhhhhhhhcccCCchHHhhhhcCCCCCCCC-----CCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcC
Q 038490            3 TSSIRLACLPRLQKDPKLALQLFKNPNPNPND-----TEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDT   77 (344)
Q Consensus         3 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   77 (344)
                      .+...++..+.+.|++++|+++|+++.+....     .......+.+.+..+|+.++.+|.+.|++++|.++|+++.+..
T Consensus       151 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  230 (597)
T 2xpi_A          151 ACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD  230 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            35667889999999999999999975333200     0000012345689999999999999999999999999998753


Q ss_pred             CCCCchhHHHH--------------------------------------HHHHHHhcccHHHHHHHHHHHHhcCCCCCHH
Q 038490           78 RIVPKEIIFCN--------------------------------------VIGFYGRARLLERALQMFDEMSSFNVQMTVK  119 (344)
Q Consensus        78 ~~~~~~~~~~~--------------------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  119 (344)
                        +.+...+..                                      ++..|.+.|++++|.++|+++.+.  +++..
T Consensus       231 --p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~  306 (597)
T 2xpi_A          231 --AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSD  306 (597)
T ss_dssp             --TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHH
T ss_pred             --chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHH
Confidence              222333332                                      255667889999999999999876  68999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL  199 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  199 (344)
                      +++.++.+|.+.|++++|..+|+++.+..+.+..++..++.++.+.|++++|..+++++.+.. +.+..++..++..|.+
T Consensus       307 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  385 (597)
T 2xpi_A          307 LLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLC  385 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHH
Confidence            999999999999999999999999998888889999999999999999999999999998653 4578899999999999


Q ss_pred             hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHH
Q 038490          200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPA  279 (344)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  279 (344)
                      .|++++|.++|+++.+..  +.+..+|+.++.+|.+.|++++|.++|+++.+.++. +..+|..++.+|.+.|++++|.+
T Consensus       386 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~  462 (597)
T 2xpi_A          386 VNKISEARRYFSKSSTMD--PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANE  462 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999988753  456889999999999999999999999999988654 88999999999999999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC----CCCCC--hhhHHHHHHHHhhcCCC
Q 038490          280 ILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK----GCKAN--PISYNVILGGLCKDGKC  344 (344)
Q Consensus       280 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~ll~~~~~~g~~  344 (344)
                      +|+++.+.... +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++
T Consensus       463 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  532 (597)
T 2xpi_A          463 YLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY  532 (597)
T ss_dssp             HHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH
Confidence            99999987543 7899999999999999999999999999875    67787  78999999999999974

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.9e-31  Score=235.07  Aligned_cols=313  Identities=9%  Similarity=-0.042  Sum_probs=279.9

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+.+.|++++|.++|+++...            +++..+|+.++..+.+.|++++|.++|+++.+..  +.+..+
T Consensus       276 ~~~~~~~~~~g~~~~A~~~~~~~~~~------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~  341 (597)
T 2xpi_A          276 MLKLNKTSHEDELRRAEDYLSSINGL------------EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID--PYNLDV  341 (597)
T ss_dssp             HTTSCTTTTHHHHHHHHHHHHTSTTG------------GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCCTT
T ss_pred             HHHHHHHcCcchHHHHHHHHHHhhcC------------CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC--cccHHH
Confidence            34578888999999999999998432            3589999999999999999999999999998763  457788


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..++.++.+.|++++|.++++.+.+.. +.+..+++.++.+|.+.|++++|..+|+++.+..+.+..+|+.++.+|.+.
T Consensus       342 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  420 (597)
T 2xpi_A          342 YPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIE  420 (597)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            9999999999999999999999999775 678899999999999999999999999999887778889999999999999


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                      |++++|.++|+++.+.+ +.+..++..++.+|.+.|++++|.+.|+++.+..  +.+..+|+.++..+.+.|++++|.++
T Consensus       421 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  497 (597)
T 2xpi_A          421 GEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINH  497 (597)
T ss_dssp             TCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            99999999999999874 4478899999999999999999999999988753  55789999999999999999999999


Q ss_pred             HHHHHHC----CCCCC--HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          246 KEEMVRD----KIEMD--AGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       246 ~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      |+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+. .+..+|..+..+|.+.|++++|.+.|+++
T Consensus       498 ~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  576 (597)
T 2xpi_A          498 FQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLST-NDANVHTAIALVYLHKKIPGLAITHLHES  576 (597)
T ss_dssp             HHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            9999876    55677  78999999999999999999999999998763 38899999999999999999999999999


Q ss_pred             hhCCCCC-ChhhHHHHHHHHh
Q 038490          320 GDKGCKA-NPISYNVILGGLC  339 (344)
Q Consensus       320 ~~~~~~p-~~~~~~~ll~~~~  339 (344)
                      .+.  .| +...+..+..+|.
T Consensus       577 l~~--~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          577 LAI--SPNEIMASDLLKRALE  595 (597)
T ss_dssp             HHH--CTTCHHHHHHHHHTTC
T ss_pred             Hhc--CCCChHHHHHHHHHHh
Confidence            985  34 5667777766654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=9.1e-28  Score=202.69  Aligned_cols=290  Identities=14%  Similarity=0.017  Sum_probs=156.3

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +..+|..+..++.+.|++++|.+.|+++.+..  +.+...+..+..++.+.|++++|.+.|+++.+.+ +.+...+..+.
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  142 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLK--PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLG  142 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            44455555555555555555555555554431  2223345555555555555555555555555443 23334444455


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      ..+...|++++|...|+++....+.+..+|..+...+.+.|++++|...|+++.+.+. .+...+..+...+...|++++
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~  221 (388)
T 1w3b_A          143 NLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDR  221 (388)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHH
Confidence            5555555555555555555544444445555555555555555555555555544321 133344444445555555555


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHH
Q 038490          206 ALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMK  285 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  285 (344)
                      |...+++.++..  +.+..++..+..++.+.|++++|...++++.+.++. +..+|..+...+.+.|++++|...|+++.
T Consensus       222 A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al  298 (388)
T 1w3b_A          222 AVAAYLRALSLS--PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555544431  223555666666666666666666666666665433 45566666666666666666666666666


Q ss_pred             HcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCCC
Q 038490          286 ERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       286 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~  344 (344)
                      +.. +.+..++..+...+.+.|++++|...++++.+. .+.+..++..+..+|.+.|++
T Consensus       299 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~  355 (388)
T 1w3b_A          299 RLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKL  355 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCC
T ss_pred             hhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCH
Confidence            553 225556666666666666666666666666653 122455566666666666653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.9e-27  Score=200.79  Aligned_cols=319  Identities=12%  Similarity=-0.017  Sum_probs=278.7

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      ++..++..+.+.|++++|+..|+++...           .+.+..+|..++.++.+.|++++|.+.|+++.+..  +.+.
T Consensus        69 ~~~~lg~~~~~~g~~~~A~~~~~~al~~-----------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~  135 (388)
T 1w3b_A           69 AYSNLGNVYKERGQLQEAIEHYRHALRL-----------KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLY  135 (388)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHc-----------CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcH
Confidence            4677889999999999999999997433           23367789999999999999999999999998752  3345


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..+..+...+...|++++|.+.|+++.+.. +.+..+|..+..++...|++++|...|+++....+.+...+..+...+.
T Consensus       136 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  214 (388)
T 1w3b_A          136 CVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLK  214 (388)
T ss_dssp             HHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            677788899999999999999999999876 6678899999999999999999999999999988888889999999999


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      ..|++++|...+++..... +.+..++..+...+.+.|++++|...++++++..  +.+..++..+..++.+.|++++|.
T Consensus       215 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~  291 (388)
T 1w3b_A          215 EARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ--PHFPDAYCNLANALKEKGSVAEAE  291 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SSCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999988763 2357788899999999999999999999988753  456788999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCC
Q 038490          244 GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  323 (344)
                      ..++++.+..+ .+..++..+...+...|++++|...++++.+.. +.+..++..+...+.+.|++++|...|+++.+. 
T Consensus       292 ~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~-  368 (388)
T 1w3b_A          292 DCYNTALRLCP-THADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI-  368 (388)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-
Confidence            99999998754 488999999999999999999999999998864 236788999999999999999999999999974 


Q ss_pred             CCC-ChhhHHHHHHHHhhcCC
Q 038490          324 CKA-NPISYNVILGGLCKDGK  343 (344)
Q Consensus       324 ~~p-~~~~~~~ll~~~~~~g~  343 (344)
                       .| +...|..+-..+...|+
T Consensus       369 -~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          369 -SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             -CTTCHHHHHHHHHHHHHTCC
T ss_pred             -CCCCHHHHHhHHHHHHHccC
Confidence             44 56778888877777664

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=3.7e-25  Score=190.36  Aligned_cols=311  Identities=11%  Similarity=-0.006  Sum_probs=261.7

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      ....++..+.+.|++++|+.+|+.+...           .+.+..+|..++.++...|++++|...|+++.+..  +.+.
T Consensus        28 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~-----------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~   94 (450)
T 2y4t_A           28 KHLELGKKLLAAGQLADALSQFHAAVDG-----------DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK--MDFT   94 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcH
Confidence            3566788899999999999999997432           33478899999999999999999999999998863  4567


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH---HHHHHH------------HHHHHhcCChHHHHHHHHHHhccC
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV---KFFNTL------------LNPKLTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~  148 (344)
                      .++..+..++.+.|++++|.+.|+.+.+.+ +.+.   ..+..+            ...+...|++++|...|+++....
T Consensus        95 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  173 (450)
T 2y4t_A           95 AARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC  173 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            889999999999999999999999999875 3444   555555            444889999999999999999888


Q ss_pred             CCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490          149 SPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFAS  228 (344)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (344)
                      +.+..++..+..+|.+.|++++|...|+++.+.. +.+..++..+...+...|++++|...++++++..  +.+...+..
T Consensus       174 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~  250 (450)
T 2y4t_A          174 VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAH  250 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHH
Confidence            8888999999999999999999999999998763 3467889999999999999999999999988653  334555554


Q ss_pred             H------------HHHHHhcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC
Q 038490          229 L------------IKGLCAVGELSLALGVKEEMVRDKIEMD----AGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN  292 (344)
Q Consensus       229 l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  292 (344)
                      +            ...+.+.|++++|...++++.+..+. +    ...+..+...+.+.|++++|+..++++..... .+
T Consensus       251 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p-~~  328 (450)
T 2y4t_A          251 YKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEP-DN  328 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-cc
Confidence            4            78899999999999999999986433 3    44788899999999999999999999988743 37


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC-hhhHHHHH
Q 038490          293 SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN-PISYNVIL  335 (344)
Q Consensus       293 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~ll  335 (344)
                      ...|..+..+|...|++++|...++++.+.  .|+ ...+..+-
T Consensus       329 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~  370 (450)
T 2y4t_A          329 VNALKDRAEAYLIEEMYDEAIQDYETAQEH--NENDQQIREGLE  370 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcchHHHHHHHH
Confidence            789999999999999999999999999974  454 45555554

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=3.4e-24  Score=184.36  Aligned_cols=294  Identities=12%  Similarity=0.038  Sum_probs=253.0

Q ss_pred             CCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHH
Q 038490           41 KPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF  120 (344)
Q Consensus        41 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  120 (344)
                      ...+.+...|..++..+.+.|++++|+.+|+++.+.  .+.+..++..+..++...|++++|...|+++.+.+ +.+..+
T Consensus        20 ~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~   96 (450)
T 2y4t_A           20 FQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAA   96 (450)
T ss_dssp             ---CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             cccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHH
Confidence            334558899999999999999999999999999875  35678899999999999999999999999999987 667889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhccCCCCc---ccHHHHH------------HHHHhhCChhHHHHHHHHHhhCCCCc
Q 038490          121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA---CSYNILI------------HGCVVSRRLEDAWKVFDEMVKRRLQP  185 (344)
Q Consensus       121 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~l~------------~~~~~~~~~~~a~~~~~~~~~~~~~~  185 (344)
                      +..+..+|...|++++|...|+++....+.+.   ..+..+.            ..+.+.|++++|...|+++.+.. +.
T Consensus        97 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~  175 (450)
T 2y4t_A           97 RLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VW  175 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            99999999999999999999999998776655   6666654            44899999999999999998763 34


Q ss_pred             CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH-
Q 038490          186 TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSL-  264 (344)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-  264 (344)
                      +...+..+..++.+.|++++|...++++++..  +.+..++..+..++...|++++|...++++....+. +...+..+ 
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~  252 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLK--NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYK  252 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHH
Confidence            77888899999999999999999999988764  567889999999999999999999999999986543 55555555 


Q ss_pred             -----------HHHHHHcCCcCcHHHHHHHHHHcCCCCC-----hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCCh
Q 038490          265 -----------ISALFKAGRKNEFPAILKEMKERGCKPN-----SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANP  328 (344)
Q Consensus       265 -----------~~~~~~~g~~~~a~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  328 (344)
                                 ...+...|++++|...|+++.+..  |+     ...+..+...+.+.|++++|...++++.+.. +.+.
T Consensus       253 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~  329 (450)
T 2y4t_A          253 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNV  329 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccH
Confidence                       889999999999999999998864  44     3478888999999999999999999998752 3368


Q ss_pred             hhHHHHHHHHhhcCCC
Q 038490          329 ISYNVILGGLCKDGKC  344 (344)
Q Consensus       329 ~~~~~ll~~~~~~g~~  344 (344)
                      ..|..+..+|...|++
T Consensus       330 ~~~~~l~~~~~~~~~~  345 (450)
T 2y4t_A          330 NALKDRAEAYLIEEMY  345 (450)
T ss_dssp             HHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhcCH
Confidence            8999999999998874

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.94  E-value=3.9e-23  Score=172.11  Aligned_cols=315  Identities=11%  Similarity=-0.020  Sum_probs=262.7

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      ....++..+...|++++|+..|+++...           .+.+..+|..+..++...|++++|...++++.+..  +.+.
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~-----------~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~   71 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDG-----------DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MDFT   71 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh-----------CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCcc
Confidence            4567888999999999999999997443           33378899999999999999999999999998852  4467


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC---CCHHHHHHH------------HHHHHhcCChHHHHHHHHHHhccC
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQ---MTVKFFNTL------------LNPKLTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~  148 (344)
                      ..+..+..++...|++++|...|+.+.+.. +   .+...+..+            ...+...|++++|...++++....
T Consensus        72 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  150 (359)
T 3ieg_A           72 AARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC  150 (359)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            889999999999999999999999999875 3   345555555            578899999999999999999888


Q ss_pred             CCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHH-
Q 038490          149 SPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFA-  227 (344)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  227 (344)
                      +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++..  +.+...+. 
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~  227 (359)
T 3ieg_A          151 VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAH  227 (359)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--ccchHHHHH
Confidence            8888999999999999999999999999998874 4477888899999999999999999999988764  33344333 


Q ss_pred             -----------HHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC
Q 038490          228 -----------SLIKGLCAVGELSLALGVKEEMVRDKIEMDA----GIYSSLISALFKAGRKNEFPAILKEMKERGCKPN  292 (344)
Q Consensus       228 -----------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  292 (344)
                                 .+...+.+.|++++|...++++.+..+. +.    ..+..+...+...|++++|...+++..+... .+
T Consensus       228 ~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~  305 (359)
T 3ieg_A          228 YKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEP-DN  305 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-cc
Confidence                       2366788999999999999999986544 33    2355678899999999999999999988743 27


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC-hhhHHHHHHHHh
Q 038490          293 SVTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN-PISYNVILGGLC  339 (344)
Q Consensus       293 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~ll~~~~  339 (344)
                      ...+..+...+...|++++|...|+++.+.  .|+ ...+..+..+..
T Consensus       306 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          306 VNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHHH
Confidence            788999999999999999999999999975  354 556666665544

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.93  E-value=3.5e-22  Score=164.52  Aligned_cols=295  Identities=10%  Similarity=-0.029  Sum_probs=250.5

Q ss_pred             CCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHH
Q 038490           41 KPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKF  120 (344)
Q Consensus        41 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  120 (344)
                      ...+.+...+..++..+...|++++|.++|+++.+..  +.+...+..++.++...|++++|...++++.+.. +.+...
T Consensus        16 ~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~   92 (330)
T 3hym_B           16 DGLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVS   92 (330)
T ss_dssp             ----CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHH
T ss_pred             hhchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHH
Confidence            3445577888899999999999999999999998863  4556677778889999999999999999999876 667888


Q ss_pred             HHHHHHHHHhcC-ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh
Q 038490          121 FNTLLNPKLTCG-KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL  199 (344)
Q Consensus       121 ~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  199 (344)
                      +..+...+...| ++++|...|++.....+.+...|..+...+...|++++|...++++.+.... +...+..+...+..
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~  171 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGL  171 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHH
Confidence            999999999999 9999999999999888888889999999999999999999999999887432 45667778889999


Q ss_pred             hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHHc
Q 038490          200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK--------IEMDAGIYSSLISALFKA  271 (344)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~  271 (344)
                      .|++++|...++++++..  +.+...+..+...+...|++++|...++++.+..        .+.+..++..+...+...
T Consensus       172 ~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          172 TNNSKLAERFFSQALSIA--PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             TTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            999999999999987643  5568889999999999999999999999998742        133567899999999999


Q ss_pred             CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHH-hhcCC
Q 038490          272 GRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGL-CKDGK  343 (344)
Q Consensus       272 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~-~~~g~  343 (344)
                      |++++|...+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..++ ...|+
T Consensus       250 g~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~  320 (330)
T 3hym_B          250 KKYAEALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGD  320 (330)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC
T ss_pred             cCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCc
Confidence            9999999999999887543 67889999999999999999999999998753 23667777777777 44443

>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=2.8e-22  Score=165.05  Aligned_cols=291  Identities=11%  Similarity=-0.023  Sum_probs=247.6

Q ss_pred             CchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc
Q 038490            3 TSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus         3 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   82 (344)
                      .....++..+...|++++|+++|+.+...           .+.+...+..++.++...|++++|..+++++.+..  +.+
T Consensus        23 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~-----------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~   89 (330)
T 3hym_B           23 DVVVSLAERHYYNCDFKMCYKLTSVVMEK-----------DPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY--PSN   89 (330)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----------CCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCC
Confidence            34566788888899999999999997443           23366778888899999999999999999998853  456


Q ss_pred             hhHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           83 EIIFCNVIGFYGRAR-LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      ...+..+...+...| ++++|.+.|+++.+.. +.+...+..+..++...|++++|...++++....+.+...+..+...
T Consensus        90 ~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~  168 (330)
T 3hym_B           90 PVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLE  168 (330)
T ss_dssp             THHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence            788889999999999 9999999999999876 56678899999999999999999999999998887778888889999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC-------CCCCHHHHHHHHHHHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN-------VKPDGQVFASLIKGLC  234 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~  234 (344)
                      |...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++...       .+....++..+..++.
T Consensus       169 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~  247 (330)
T 3hym_B          169 YGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCR  247 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHH
Confidence            999999999999999998874 34678888899999999999999999999877531       1334678899999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH-hccCCHH
Q 038490          235 AVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF-CKEEDFE  310 (344)
Q Consensus       235 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~~~~~  310 (344)
                      ..|++++|...+++..+..+. +...+..+...+...|++++|...+++..+.... +...+..+..++ ...|+.+
T Consensus       248 ~~g~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          248 KLKKYAEALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD-DTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC-CHHHHHHHHHHHHTTTTC--
T ss_pred             HhcCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC-chHHHHHHHHHHHHHhCchh
Confidence            999999999999999987654 7889999999999999999999999999876432 667777777777 4556543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=1.2e-22  Score=177.47  Aligned_cols=319  Identities=8%  Similarity=-0.094  Sum_probs=171.0

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      +...+..+.+.|++++|+..|+++....            |+..+|..++.++.+.|++++|...++++.+..  +.+..
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~------------p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~   74 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELK------------EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSK   74 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHC------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC------------ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHH
Confidence            3445666667777777777777763321            256667777777777777777777777766642  33455


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCC--------------------------------------------------
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNV--------------------------------------------------  114 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------------------------------------  114 (344)
                      ++..+..++...|++++|...|+.+.+.+.                                                  
T Consensus        75 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  154 (514)
T 2gw1_A           75 VLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDK  154 (514)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhh
Confidence            666666777777777777766666654331                                                  


Q ss_pred             -------------------------------------------------------------------------------C
Q 038490          115 -------------------------------------------------------------------------------Q  115 (344)
Q Consensus       115 -------------------------------------------------------------------------------~  115 (344)
                                                                                                     +
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (514)
T 2gw1_A          155 QENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKE  234 (514)
T ss_dssp             --CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHH
T ss_pred             ccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccCh
Confidence                                                                                           0


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHH
Q 038490          116 MTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIY  195 (344)
Q Consensus       116 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  195 (344)
                      .+..++..+...+...|++++|...++++....+. ...+..+...+...|++++|...++++.... +.+...+..+..
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  312 (514)
T 2gw1_A          235 KLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQ  312 (514)
T ss_dssp             HHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHH
Confidence            11223333333444444444444444444433323 4444444444444455555555554444432 123344444555


Q ss_pred             HHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                      .+...|++++|...++++++..  +.+...+..+...+...|++++|...++++.+..+. +...+..+...+...|+++
T Consensus       313 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  389 (514)
T 2gw1_A          313 MNFILQNYDQAGKDFDKAKELD--PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEVPNFFAEILTDKNDFD  389 (514)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTC--SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC--hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHCCCHH
Confidence            5555555555555555554432  223445555555555556666666665555554322 4455555666666666666


Q ss_pred             cHHHHHHHHHHcCCC-CC----hhhHHHHHHHHhc---cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          276 EFPAILKEMKERGCK-PN----SVTYNALISGFCK---EEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       276 ~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      +|...++++...... ++    ...+..+...+..   .|++++|...++++.+.. +.+..++..+...|.+.|+
T Consensus       390 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~  464 (514)
T 2gw1_A          390 KALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQED  464 (514)
T ss_dssp             HHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcC
Confidence            666666655543211 01    1255555666666   666666666666665532 2244555556666655554

>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=99.92  E-value=5.5e-22  Score=166.00  Aligned_cols=295  Identities=8%  Similarity=-0.106  Sum_probs=220.1

Q ss_pred             hcccCCchHHhh-hhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHH
Q 038490           12 PRLQKDPKLALQ-LFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVI   90 (344)
Q Consensus        12 ~~~~~~~~~A~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~   90 (344)
                      +...|++++|+. .|++.....+       .....+...+..+...+.+.|++++|...|+++.+.  .+.+..++..+.
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~-------~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~  105 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEE-------ENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLG  105 (368)
T ss_dssp             -----------CHHHHCCCCCCS-------SCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCC-------CCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            344578888888 7776543321       011114566788888999999999999999998875  255677888888


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHH------------
Q 038490           91 GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNIL------------  158 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l------------  158 (344)
                      .++...|++++|...|+++.+.+ +.+..++..+..++...|++++|...++++....+.+...+..+            
T Consensus       106 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (368)
T 1fch_A          106 TTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPS  184 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC--------------
T ss_pred             HHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHH
Confidence            99999999999999999998876 66788889999999999999999999999888766444444321            


Q ss_pred             ---HHHHHhhCChhHHHHHHHHHhhCCCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490          159 ---IHGCVVSRRLEDAWKVFDEMVKRRLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC  234 (344)
Q Consensus       159 ---~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  234 (344)
                         +..+...|++++|...++++.+..... +..++..+...+...|++++|...++++++..  +.+..++..+..++.
T Consensus       185 ~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~  262 (368)
T 1fch_A          185 KRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLA  262 (368)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHH
Confidence               333448889999999999888763221 46778888888889999999999998887753  456778888888899


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC----------ChhhHHHHHHHHh
Q 038490          235 AVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKP----------NSVTYNALISGFC  304 (344)
Q Consensus       235 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p----------~~~~~~~l~~~~~  304 (344)
                      ..|++++|...++++.+..+. +...+..+..+|...|++++|...|+++.......          ...+|..+..++.
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  341 (368)
T 1fch_A          263 NGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALS  341 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHH
Confidence            999999999999998876543 67888888999999999999999998887653221          1577888888999


Q ss_pred             ccCCHHHHHHHHHHH
Q 038490          305 KEEDFEAAFTILDEM  319 (344)
Q Consensus       305 ~~~~~~~a~~~~~~~  319 (344)
                      ..|++++|..++++.
T Consensus       342 ~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          342 MLGQSDAYGAADARD  356 (368)
T ss_dssp             HHTCGGGHHHHHTTC
T ss_pred             HhCChHhHHHhHHHH
Confidence            999999888877643

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.91  E-value=7.8e-21  Score=158.17  Aligned_cols=290  Identities=12%  Similarity=0.032  Sum_probs=245.8

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ++..+..+...+...|++++|...|+++.+..  +.+..++..+..++...|++++|...++++.+.. +.+...+..+.
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   78 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRG   78 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHH
Confidence            56788899999999999999999999998863  5567889999999999999999999999999876 56788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCC---CCcccHHHH------------HHHHHhhCChhHHHHHHHHHhhCCCCcCHhhH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVS---PDACSYNIL------------IHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTF  190 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  190 (344)
                      .++...|++++|...++++....+   .+...+..+            ...+...|++++|...++++.+.. +.+...+
T Consensus        79 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           79 HLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            999999999999999999988766   556666555            578899999999999999998774 3467788


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH--------
Q 038490          191 GTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYS--------  262 (344)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--------  262 (344)
                      ..+...+...|++++|...++++++..  +.+...+..+...+...|++++|...+++..+..+. +...+.        
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~  234 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK--SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKL  234 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC--SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHH
Confidence            889999999999999999999987643  567889999999999999999999999999987543 444443        


Q ss_pred             ----HHHHHHHHcCCcCcHHHHHHHHHHcCCCCCh----hhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHH
Q 038490          263 ----SLISALFKAGRKNEFPAILKEMKERGCKPNS----VTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVI  334 (344)
Q Consensus       263 ----~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  334 (344)
                          .+...+...|++++|...++++.+.... +.    ..+..+...+...|++++|...+++..+.. +.+...|..+
T Consensus       235 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  312 (359)
T 3ieg_A          235 NKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDR  312 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence                2366789999999999999999887433 33    234557788999999999999999999852 3377889999


Q ss_pred             HHHHhhcCCC
Q 038490          335 LGGLCKDGKC  344 (344)
Q Consensus       335 l~~~~~~g~~  344 (344)
                      ...+.+.|++
T Consensus       313 ~~~~~~~g~~  322 (359)
T 3ieg_A          313 AEAYLIEEMY  322 (359)
T ss_dssp             HHHHHHTTCH
T ss_pred             HHHHHHcCCH
Confidence            9999988874

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.91  E-value=1.4e-21  Score=163.51  Aligned_cols=267  Identities=10%  Similarity=-0.113  Sum_probs=220.4

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...|..+...+.+.|++++|+..|+++.+..  +.+..++..+..++...|++++|+..|+++.+.. +.+..++..+.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            55668889999999999999999999998863  5567889999999999999999999999999876 66788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccH----------HHHHHHHHhhCChhHHHHHHHHHhhCCCC-cCHhhHHHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSY----------NILIHGCVVSRRLEDAWKVFDEMVKRRLQ-PTLVTFGTLI  194 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~  194 (344)
                      .+|...|++++|...++++....+.+...+          ..+...+...|++++|...++++.+.... ++..++..+.
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            999999999999999999987655333333          34578899999999999999999886322 1577888899


Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRK  274 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  274 (344)
                      ..+...|++++|...++++++..  +.+..++..+..++...|++++|...++++.+..+. +..++..+..+|...|++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCH
Confidence            99999999999999999988763  556889999999999999999999999999987544 688999999999999999


Q ss_pred             CcHHHHHHHHHHcCCC-----------CChhhHHHHHHHHhccCCHHHHHHHHHH
Q 038490          275 NEFPAILKEMKERGCK-----------PNSVTYNALISGFCKEEDFEAAFTILDE  318 (344)
Q Consensus       275 ~~a~~~~~~~~~~~~~-----------p~~~~~~~l~~~~~~~~~~~~a~~~~~~  318 (344)
                      ++|...|+++.+....           .+...|..+..++...|+.+.+..+.++
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            9999999998775211           1357788999999999999888877654

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.90  E-value=3.2e-21  Score=161.30  Aligned_cols=284  Identities=11%  Similarity=-0.033  Sum_probs=227.1

Q ss_pred             HHhcCCchHHHH-HHHHhhhcCCCCC--chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           57 LGRAKMFDEMQQ-ILHQLKHDTRIVP--KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        57 ~~~~~~~~~a~~-~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      +.-.|++++|.+ .+++......-.|  +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344588999998 8887664321122  34567888999999999999999999999886 6788899999999999999


Q ss_pred             hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHH---------------HHHHHH
Q 038490          134 LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGT---------------LIYGLC  198 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~  198 (344)
                      +++|...++++....+.+..++..+...+...|++++|...++++...... +...+..               .+..+.
T Consensus       114 ~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          114 ELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            999999999999888888899999999999999999999999999887433 2222211               233444


Q ss_pred             hhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHH
Q 038490          199 LELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFP  278 (344)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  278 (344)
                      ..|++++|...++++++.....++..++..+...+...|++++|...++++.+..+. +..++..+...+...|++++|.
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHcCCHHHHH
Confidence            899999999999998876433336889999999999999999999999999987544 7889999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCC----------CChhhHHHHHHHHhhcCCC
Q 038490          279 AILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCK----------ANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       279 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------p~~~~~~~ll~~~~~~g~~  344 (344)
                      ..++++.+... .+...+..+..++.+.|++++|...|+++.+....          ....+|..+..+|.+.|++
T Consensus       272 ~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  346 (368)
T 1fch_A          272 AAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG
T ss_pred             HHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCCh
Confidence            99999988743 36788999999999999999999999999863211          0167899999999988874

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.90  E-value=8e-21  Score=166.98  Aligned_cols=319  Identities=10%  Similarity=-0.061  Sum_probs=211.8

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      +..++..+.+.|++++|+..|+++...           .+.+..+|..+..++.+.|++++|++.++++.+..  +.+..
T Consensus        28 ~~~~g~~~~~~g~~~~A~~~~~~al~~-----------~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~   94 (537)
T 3fp2_A           28 LKNRGNHFFTAKNFNEAIKYYQYAIEL-----------DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSK   94 (537)
T ss_dssp             HHHHHHHHHHTTCCC-CHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhh-----------CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHH
Confidence            456788888999999999999997443           33478889999999999999999999999988753  45677


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHH------------------------------------------------------
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMS------------------------------------------------------  110 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~------------------------------------------------------  110 (344)
                      ++..+..++...|++++|...|+.+.                                                      
T Consensus        95 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  174 (537)
T 3fp2_A           95 ALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIF  174 (537)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhc
Confidence            88888888888888888888774331                                                      


Q ss_pred             -------------------------------------------------------hcCCCCC-------HHHHHHHHHHH
Q 038490          111 -------------------------------------------------------SFNVQMT-------VKFFNTLLNPK  128 (344)
Q Consensus       111 -------------------------------------------------------~~~~~~~-------~~~~~~l~~~~  128 (344)
                                                                             +.. +.+       ..++..+...+
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          175 DSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             CHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHH
Confidence                                                                   111 111       11244444555


Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHH
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALK  208 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  208 (344)
                      ...|++++|...++++....+. ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|..
T Consensus       254 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  331 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINLHPT-PNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKE  331 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            6666777777777766655433 5666666667777777777777777766553 2245566666677777777777777


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          209 LKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      .++++++..  +.+...+..+..++...|++++|...++++.+..+. +...+..+...+...|++++|...++++.+..
T Consensus       332 ~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          332 DFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            777766543  334556666777777777777777777777765433 56667777777777777777777777765542


Q ss_pred             CCC-----ChhhHHHHHHHHhcc----------CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          289 CKP-----NSVTYNALISGFCKE----------EDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       289 ~~p-----~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      ...     ....+......+...          |++++|...++++.+.. +.+...+..+...|.+.|+
T Consensus       409 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~  477 (537)
T 3fp2_A          409 EVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEK  477 (537)
T ss_dssp             HHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             CcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcc
Confidence            110     111123334455555          77777777777776642 2355667777777777765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=2.3e-20  Score=163.12  Aligned_cols=289  Identities=11%  Similarity=0.038  Sum_probs=242.7

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ....|......+.+.|++++|+..|+++...   .|+..++..+..++.+.|++++|.+.++++.+.+ +.+..++..+.
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~   80 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALEL---KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRA   80 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc---CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHH
Confidence            4567888999999999999999999999986   3789999999999999999999999999999887 67788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCccc---------------------------------------------------
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACS---------------------------------------------------  154 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------------------------------------------  154 (344)
                      .++...|++++|...|+++....+++...                                                   
T Consensus        81 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           81 SANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCC
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCch
Confidence            99999999999999999987765433222                                                   


Q ss_pred             ----------------------------HHHHHHHHH---hhCChhHHHHHHHHHhh-----CCC--------CcCHhhH
Q 038490          155 ----------------------------YNILIHGCV---VSRRLEDAWKVFDEMVK-----RRL--------QPTLVTF  190 (344)
Q Consensus       155 ----------------------------~~~l~~~~~---~~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~  190 (344)
                                                  +......+.   +.|++++|...|+++.+     ...        +.+...+
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence                                        222222233   37999999999999987     311        2235567


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 038490          191 GTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFK  270 (344)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  270 (344)
                      ..+...+...|++++|...++++++..   |+...+..+..++...|++++|...++++.+..+. +...+..+...+..
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~  316 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELF---PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFI  316 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC---ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHH
Confidence            778888999999999999999988763   33888899999999999999999999999987644 77889999999999


Q ss_pred             cCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCCC
Q 038490          271 AGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGKC  344 (344)
Q Consensus       271 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~  344 (344)
                      .|++++|...++++...... +...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++
T Consensus       317 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  388 (514)
T 2gw1_A          317 LQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDF  388 (514)
T ss_dssp             TTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCH
T ss_pred             hCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCH
Confidence            99999999999999987544 67788889999999999999999999998752 33667888888888888863

>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=99.89  E-value=8.6e-21  Score=155.96  Aligned_cols=268  Identities=6%  Similarity=-0.104  Sum_probs=228.6

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...+..+...+...|++++|..+|+++.+..  +.+...+..+..++...|++++|.+.++++.+.. +.+..++..+.
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   96 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALA   96 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHH
Confidence            55678888999999999999999999998853  4567888899999999999999999999999886 66788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHH--------------HH-HHHhhCChhHHHHHHHHHhhCCCCcCHhhH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNIL--------------IH-GCVVSRRLEDAWKVFDEMVKRRLQPTLVTF  190 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  190 (344)
                      .++...|++++|...++++....+.+...+..+              .. .+...|++++|...++++.+.. +.+...+
T Consensus        97 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           97 VSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            999999999999999999988776555555554              33 4788899999999999998774 3367888


Q ss_pred             HHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 038490          191 GTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFK  270 (344)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  270 (344)
                      ..+...+...|++++|...++++++..  +.+...+..+...+...|++++|...++++.+..+. +...+..+...+..
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~  252 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAVSYSN  252 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHH
Confidence            889999999999999999999988763  456888999999999999999999999999887544 78899999999999


Q ss_pred             cCCcCcHHHHHHHHHHcCCCC-----------ChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          271 AGRKNEFPAILKEMKERGCKP-----------NSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       271 ~g~~~~a~~~~~~~~~~~~~p-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      .|++++|...++++.......           +...+..+..++...|++++|..++++..
T Consensus       253 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          253 MSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             hccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999999999999998764331           46788889999999999999999987554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=1.7e-20  Score=156.89  Aligned_cols=259  Identities=9%  Similarity=-0.080  Sum_probs=214.1

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +...+..+...+.+.|++++|.+.|+.+.+.. +.+..++..+..++...|++++|...|+++....+.+..++..+..+
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            34558888999999999999999999999886 67889999999999999999999999999998888888999999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCc---------CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQP---------TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKG  232 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  232 (344)
                      |...|++++|...++++.+.....         ....+..+...+...|++++|...++++++......+..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            999999999999999998753110         01223345778899999999999999998875333378899999999


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 038490          233 LCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAA  312 (344)
Q Consensus       233 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  312 (344)
                      +...|++++|...++++.+..+. +..+|..+..+|...|++++|...|+++.+.... +...+..+..+|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999987644 7899999999999999999999999999987433 678899999999999999999


Q ss_pred             HHHHHHHhhCC---CC--------CChhhHHHHHHHHhhcCC
Q 038490          313 FTILDEMGDKG---CK--------ANPISYNVILGGLCKDGK  343 (344)
Q Consensus       313 ~~~~~~~~~~~---~~--------p~~~~~~~ll~~~~~~g~  343 (344)
                      ...|+++.+..   ..        .+...|..+..++...|+
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  342 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQ  342 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCc
Confidence            99999997532   00        136778888888877765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.87  E-value=1.5e-20  Score=154.56  Aligned_cols=264  Identities=9%  Similarity=-0.070  Sum_probs=222.2

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      .+..++..+...|++++|+.+|+.+...           .+.+..+|..+..++...|++++|...++++.+..  +.+.
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~   89 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQA-----------APEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDI   89 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cCCH
Confidence            3467788899999999999999997443           23378889999999999999999999999998863  5567


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHH--------------HH-HHHhcCChHHHHHHHHHHhccC
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTL--------------LN-PKLTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~  148 (344)
                      .++..+...+...|++++|.+.++.+.+.. +.+...+..+              .. .+...|++++|...++++....
T Consensus        90 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  168 (327)
T 3cv0_A           90 AVHAALAVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN  168 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC
Confidence            888999999999999999999999999865 3333344333              33 4778899999999999999888


Q ss_pred             CCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490          149 SPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFAS  228 (344)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (344)
                      +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++..  +.+...+..
T Consensus       169 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~  245 (327)
T 3cv0_A          169 PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--PGYVRVMYN  245 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHH
Confidence            8888999999999999999999999999998763 3367788899999999999999999999988763  456888999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          229 LIKGLCAVGELSLALGVKEEMVRDKIEM-----------DAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       229 l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      +..++...|++++|...++++.+..+..           +...+..+..++...|++++|..++++.
T Consensus       246 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          246 MAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9999999999999999999998764332           4778899999999999999999988754

>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=99.87  E-value=1e-19  Score=159.91  Aligned_cols=302  Identities=11%  Similarity=-0.021  Sum_probs=245.1

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcC------
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDT------   77 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------   77 (344)
                      .+..++..+...|++++|++.|+++...           .+.+..++..+..++...|++++|...|+.+....      
T Consensus        61 ~~~~la~~~~~~g~~~~A~~~~~~al~~-----------~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  129 (537)
T 3fp2_A           61 FYSNISACYISTGDLEKVIEFTTKALEI-----------KPDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGAS  129 (537)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc-----------CCchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHH
Confidence            4567788888999999999999887433           23377888888999999999888888774331100      


Q ss_pred             --------------------------------------------------------------------------------
Q 038490           78 --------------------------------------------------------------------------------   77 (344)
Q Consensus        78 --------------------------------------------------------------------------------   77 (344)
                                                                                                      
T Consensus       130 ~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (537)
T 3fp2_A          130 IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDE  209 (537)
T ss_dssp             --CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhh
Confidence                                                                                            


Q ss_pred             --------------------CCCCc--------hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490           78 --------------------RIVPK--------EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus        78 --------------------~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  129 (344)
                                          ...|+        ..++..+...+...|++++|...|+.+.+..  |+...+..+...+.
T Consensus       210 ~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  287 (537)
T 3fp2_A          210 GYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLA  287 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTC
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHH
Confidence                                01122        1235555667788899999999999999874  55888999999999


Q ss_pred             hcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHH
Q 038490          130 TCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKL  209 (344)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (344)
                      ..|++++|...++++....+.+..++..+...+...|++++|...++++.+... .+...+..+...+...|++++|...
T Consensus       288 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~  366 (537)
T 3fp2_A          288 DKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAF  366 (537)
T ss_dssp             CSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999988888889999999999999999999999999988642 3567788899999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHHc----------CCc
Q 038490          210 KEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIE-----MDAGIYSSLISALFKA----------GRK  274 (344)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~----------g~~  274 (344)
                      ++++++..  +.+...+..+...+...|++++|...++++.+..+.     .....+..+...+...          |++
T Consensus       367 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  444 (537)
T 3fp2_A          367 FNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKF  444 (537)
T ss_dssp             HHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHH
T ss_pred             HHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHH
Confidence            99988764  556778899999999999999999999998765321     1223345556777777          999


Q ss_pred             CcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          275 NEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       275 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      ++|...|+++.+.... +...+..+...+...|++++|...|++..+.
T Consensus       445 ~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          445 NAAIKLLTKACELDPR-SEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999999999987543 6788999999999999999999999999875

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.85  E-value=2.6e-18  Score=138.40  Aligned_cols=253  Identities=10%  Similarity=0.043  Sum_probs=201.5

Q ss_pred             hhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHH
Q 038490           11 LPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVI   90 (344)
Q Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~   90 (344)
                      .....|++..|+..++.+....+          .........+.++|...|+++.|+..++.   .  -+|+..++..+.
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~~p----------~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~--~~~~~~a~~~la   72 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPSSP----------ERDVERDVFLYRAYLAQRKYGVVLDEIKP---S--SAPELQAVRMFA   72 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCSH----------HHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T--SCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCc----------hhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c--CChhHHHHHHHH
Confidence            34457999999999877633221          01134556678999999999999986644   1  356778888899


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChh
Q 038490           91 GFYGRARLLERALQMFDEMSSFNV-QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLE  169 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (344)
                      ..+...++.++|++.++++...+. +.+...+..+..++...|++++|...+++     +.+...+..++..+.+.|+++
T Consensus        73 ~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-----~~~~~~~~~l~~~~~~~g~~~  147 (291)
T 3mkr_A           73 EYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-----GDSLECMAMTVQILLKLDRLD  147 (291)
T ss_dssp             HHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-----CCSHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-----CCCHHHHHHHHHHHHHCCCHH
Confidence            999999999999999999987764 44667777888999999999999999987     467788999999999999999


Q ss_pred             HHHHHHHHHhhCCCCcCHhhHH---HHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490          170 DAWKVFDEMVKRRLQPTLVTFG---TLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVK  246 (344)
Q Consensus       170 ~a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  246 (344)
                      +|.+.|+++.+..  |+.....   .++..+...|++++|..+|+++++..  +.+...++.+..++.+.|++++|...+
T Consensus       148 ~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~eA~~~l  223 (291)
T 3mkr_A          148 LARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVL  223 (291)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998773  4432211   22233445589999999999988763  668889999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcCc-HHHHHHHHHHcC
Q 038490          247 EEMVRDKIEMDAGIYSSLISALFKAGRKNE-FPAILKEMKERG  288 (344)
Q Consensus       247 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~  288 (344)
                      ++..+..+. +..++..++..+...|+.++ +.++++++.+..
T Consensus       224 ~~al~~~p~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          224 QEALDKDSG-HPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            999987655 88899999999999999876 578999988874

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.84  E-value=2.2e-18  Score=138.87  Aligned_cols=251  Identities=10%  Similarity=0.009  Sum_probs=205.7

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCch--hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKE--IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC  131 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  131 (344)
                      ++-....|+++.|+..++.....   .|+.  .....+.++|...|+++.|+..++.   .. +|+..++..+...+...
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~---~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~~-~~~~~a~~~la~~~~~~   78 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS---SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---SS-APELQAVRMFAEYLASH   78 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC---SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---TS-CHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC---CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---cC-ChhHHHHHHHHHHHcCC
Confidence            45567789999999999887543   3443  3556678999999999999987654   22 67778889999999999


Q ss_pred             CChHHHHHHHHHHhccC--CCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHH
Q 038490          132 GKLDRMKELFQIMEKYV--SPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKL  209 (344)
Q Consensus       132 ~~~~~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (344)
                      ++.++|.+.++++....  +.+...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|.+.
T Consensus        79 ~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~  152 (291)
T 3mkr_A           79 SRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKE  152 (291)
T ss_dssp             TTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999987654  44666777888999999999999999987      35777888899999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHH---HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH
Q 038490          210 KEDIMRVYNVKPDGQVF---ASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       210 ~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  286 (344)
                      ++++.+..   |+....   ...+..+...|++++|..+|+++.+..+ .+...++.+..++.+.|++++|...|++..+
T Consensus       153 l~~~~~~~---p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          153 LKKMQDQD---EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHHC---TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhC---cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99988763   443211   2233444556899999999999998854 4899999999999999999999999999998


Q ss_pred             cCCCCChhhHHHHHHHHhccCCHHH-HHHHHHHHhhC
Q 038490          287 RGCKPNSVTYNALISGFCKEEDFEA-AFTILDEMGDK  322 (344)
Q Consensus       287 ~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~  322 (344)
                      ..+. +..++..++..+...|+.++ +.++++++.+.
T Consensus       229 ~~p~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          229 KDSG-HPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             hCCC-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            7543 78889999999999999876 67899999874

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=1.1e-20  Score=168.33  Aligned_cols=154  Identities=11%  Similarity=0.060  Sum_probs=125.5

Q ss_pred             CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 038490          184 QPTLVTFGTLIYGLCLELRVDEALKLKEDIMR--VYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIY  261 (344)
Q Consensus       184 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  261 (344)
                      ..-..||+++|++||+.|++++|..+|.+|.+  ..|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||
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            33567899999999999999999999988643  3478999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCc-CcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCC------hhhHHHH
Q 038490          262 SSLISALFKAGRK-NEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKAN------PISYNVI  334 (344)
Q Consensus       262 ~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~------~~~~~~l  334 (344)
                      +++|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.    .+++..+++ ..++.|+      ..|...|
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHH
Confidence            9999999999985 68899999999999999999999998665553    444444444 3455554      4455555


Q ss_pred             HHHHhhcC
Q 038490          335 LGGLCKDG  342 (344)
Q Consensus       335 l~~~~~~g  342 (344)
                      .+.|.+.|
T Consensus       279 ~dl~s~d~  286 (1134)
T 3spa_A          279 RDVYAKDG  286 (1134)
T ss_dssp             HHHHCCCS
T ss_pred             HHHHccCC
Confidence            55555544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=1.9e-20  Score=166.80  Aligned_cols=149  Identities=13%  Similarity=0.116  Sum_probs=118.3

Q ss_pred             cccHHHHHHHHHhhCChhHHHHHHHHHhh---CCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490          152 ACSYNILIHGCVVSRRLEDAWKVFDEMVK---RRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFAS  228 (344)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (344)
                      ..+|+++|++|++.|++++|.++|++|.+   .|+.||..|||+||.+||+.|++++|.++|++|. ..|+.||..||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~-~~G~~PDvvTYnt  205 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK-DAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCCCCcHHHHHH
Confidence            45799999999999999999999988764   4789999999999999999999999999999965 4599999999999


Q ss_pred             HHHHHHhcCCh-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC------hhhHHHHHH
Q 038490          229 LIKGLCAVGEL-SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN------SVTYNALIS  301 (344)
Q Consensus       229 l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~  301 (344)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.    .+++..+++ ..++.|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            99999999984 78899999999999999999999988766554    333444443 2244443      334444555


Q ss_pred             HHhcc
Q 038490          302 GFCKE  306 (344)
Q Consensus       302 ~~~~~  306 (344)
                      .|.+.
T Consensus       281 l~s~d  285 (1134)
T 3spa_A          281 VYAKD  285 (1134)
T ss_dssp             HHCCC
T ss_pred             HHccC
Confidence            55544

>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=6.1e-19  Score=145.68  Aligned_cols=282  Identities=11%  Similarity=0.055  Sum_probs=123.0

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC   87 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (344)
                      +-.++.+.|+.++|.++++++.                +..+|..++.++.+.|++++|++.|.+.       +|...|.
T Consensus         9 ~~~ll~~~~~ld~A~~fae~~~----------------~~~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~   65 (449)
T 1b89_A            9 VQVLIEHIGNLDRAYEFAERCN----------------EPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYM   65 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHccCHHHHHHHHHhCC----------------ChHHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHH
Confidence            4445667889999999999991                3358999999999999999999999652       5677899


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .++..+...|++++|++.++..++.  .+++.+.+.++.+|.+.|+++++.++++      .|+..+|+.+...|...|.
T Consensus        66 ~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~------~pn~~a~~~IGd~~~~~g~  137 (449)
T 1b89_A           66 EVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN------GPNNAHIQQVGDRCYDEKM  137 (449)
T ss_dssp             ---------------------------------------------CHHHHTTTTT------CC----------------C
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc------CCcHHHHHHHHHHHHHcCC
Confidence            9999999999999999988777764  4557889999999999999999988774      2677799999999999999


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKE  247 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  247 (344)
                      +++|...|..+         ..|..+..++.+.|++++|.+.++++       .++.+|..++.+|...|+++.|.....
T Consensus       138 yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l  201 (449)
T 1b89_A          138 YDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGL  201 (449)
T ss_dssp             TTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTT
T ss_pred             HHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHH
Confidence            99999999977         37999999999999999999999885       378999999999999999999965544


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh-hCCCCC
Q 038490          248 EMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG-DKGCKA  326 (344)
Q Consensus       248 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~p  326 (344)
                      .     +..++.-...++..|.+.|++++|..+++...... +-....|+.+..+|++- ++++..+.++... +-+++|
T Consensus       202 ~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k  274 (449)
T 1b89_A          202 H-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPK  274 (449)
T ss_dssp             T-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHH
T ss_pred             H-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcH
Confidence            3     23355556679999999999999999999988664 23556777776666654 3333333333222 122333


Q ss_pred             ------ChhhHHHHHHHHhhcCC
Q 038490          327 ------NPISYNVILGGLCKDGK  343 (344)
Q Consensus       327 ------~~~~~~~ll~~~~~~g~  343 (344)
                            +...|.-+.-.|.+.|+
T Consensus       275 ~~~~~~~~~~w~e~~~ly~~~~e  297 (449)
T 1b89_A          275 VLRAAEQAHLWAELVFLYDKYEE  297 (449)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHhhch
Confidence                  45566666666665554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=3.9e-17  Score=129.35  Aligned_cols=229  Identities=16%  Similarity=0.034  Sum_probs=121.2

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC--CCCHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNV--QMTVKFFNTL  124 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l  124 (344)
                      ...|..+...+...|++++|...|++..+..   .+...+..+..++...|++++|.+.++...+...  .++..     
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~-----   76 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH---KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYK-----   76 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHH-----
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh---ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchH-----
Confidence            4455555555556666666666665555542   4445555555555555555555555555554320  00100     


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                                               ....++..+...+...|++++|...|++.....  |+.       ..+...|+++
T Consensus        77 -------------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~  122 (258)
T 3uq3_A           77 -------------------------VISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAE  122 (258)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHH
T ss_pred             -------------------------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHH
Confidence                                     002344444444444555555555554444431  221       2344455556


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          205 EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      +|...++.+....  +.+...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++|...+++.
T Consensus       123 ~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a  199 (258)
T 3uq3_A          123 KELKKAEAEAYVN--PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKA  199 (258)
T ss_dssp             HHHHHHHHHHHCC--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC--cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            6666665544321  223445555556666666666666666666654433 5556666666666666666666666666


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          285 KERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       285 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .+.... +...+..+...+...|++++|...+++..+
T Consensus       200 l~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          200 IEKDPN-FVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            555322 455566666666666666666666666654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.80  E-value=1.5e-17  Score=128.31  Aligned_cols=196  Identities=11%  Similarity=-0.049  Sum_probs=98.8

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...+..+...+.+.|++++|...|++..+..  +.+...+..+..++.+.|++++|+..|++..+.. |.+...+..+.
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN--PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            55566666666666777777777766666532  3445566666666666677777776666666654 44555666666


Q ss_pred             HHHHhc-----------CChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHH
Q 038490          126 NPKLTC-----------GKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLI  194 (344)
Q Consensus       126 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  194 (344)
                      .++...           |++++|...+++..+..|.+...+..+..++...|++++|+..|++..+..  .+...+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            666655           555555555555444444444444444444555555555555555444443  2344444444


Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEE  248 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  248 (344)
                      .++...|++++|+..++++++..  +.+...+..+...+...|++++|...+++
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC-------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            44444444444444444444331  22334444444444444444444444443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=5.3e-17  Score=128.57  Aligned_cols=196  Identities=11%  Similarity=0.046  Sum_probs=128.0

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCC-CCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHH
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTR-IVPK----EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVK  119 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  119 (344)
                      .+..+|..+..++...|++++|.+.+++..+... ..++    ..++..+...+...|++++|...|++..+..  |+. 
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-  112 (258)
T 3uq3_A           36 KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-  112 (258)
T ss_dssp             CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-
T ss_pred             ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-
Confidence            5678899999999999999999999999876420 1112    4778888889999999999999999988753  443 


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL  199 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  199 (344)
                            ..+...|++++|...++.+....+.+...+..+...+...|++++|...++++.+.. +.+...+..+...+..
T Consensus       113 ------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~  185 (258)
T 3uq3_A          113 ------DILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAK  185 (258)
T ss_dssp             ------HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             ------HHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHH
Confidence                  234455666677777766665544445556666666666666666666666665542 2244555555555566


Q ss_pred             hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          200 ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      .|++++|...++++++..  +.+...+..+..++.+.|++++|...+++..+.
T Consensus       186 ~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          186 LMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            666666666666555432  333455555555555566666666555555543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.80  E-value=2e-17  Score=127.49  Aligned_cols=210  Identities=16%  Similarity=0.008  Sum_probs=117.5

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      ++...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|...+++.....|.+...+..+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~   81 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSE   81 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            444555566666666666666666666666554 4455666666666666666666666666666555555555555555


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      ++...+..            .   ..         .....|++++|+..+++.++..  +.+...+..+..++...|+++
T Consensus        82 ~~~~~~~~------------~---~~---------~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~  135 (217)
T 2pl2_A           82 AYVALYRQ------------A---ED---------RERGKGYLEQALSVLKDAERVN--PRYAPLHLQRGLVYALLGERD  135 (217)
T ss_dssp             HHHHHHHT------------C---SS---------HHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhh------------h---hh---------hcccccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChH
Confidence            55554100            0   00         0012267777777776666542  334566666666677777777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      +|+..|++..+..  .+...+..+..++...|++++|+..|++..+..+. +...+..+...+...|++++|...+++..
T Consensus       136 ~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          136 KAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            7777777776665  36666667777777777777777777776665332 55566666667777777777777666554

>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=1.6e-18  Score=143.17  Aligned_cols=266  Identities=11%  Similarity=0.080  Sum_probs=137.2

Q ss_pred             CCCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC
Q 038490            1 KPTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV   80 (344)
Q Consensus         1 ~p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   80 (344)
                      +|...+.++..+.+.|++++|++.|.+.                +|..+|..++..+...|++++|+..++...+.   .
T Consensus        31 ~~~vWs~La~A~l~~g~~~eAIdsfika----------------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~---~   91 (449)
T 1b89_A           31 EPAVWSQLAKAQLQKGMVKEAIDSYIKA----------------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK---A   91 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHcC----------------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---C
Confidence            3667789999999999999999999664                16778999999999999999999987776663   4


Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      +++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|.+++|...|..+        ..|..++.
T Consensus        92 ~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------~n~~~LA~  156 (449)
T 1b89_A           92 RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLAS  156 (449)
T ss_dssp             -----------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT--------TCHHHHHH
T ss_pred             ccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh--------hhHHHHHH
Confidence            557888999999999999999998885       467779999999999999999999999977        48999999


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      ++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......      +...+.-...++..|.+.|.++
T Consensus       157 ~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~------L~~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          157 TLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT------TTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH------HHhCHhhHHHHHHHHHHCCCHH
Confidence            999999999999999998      2789999999999999999999555433      2334444567899999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--CCcCcHHHHHHHHHHcCCCC------ChhhHHHHHHHHhccCCHHHH
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKA--GRKNEFPAILKEMKERGCKP------NSVTYNALISGFCKEEDFEAA  312 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~~~~~~a  312 (344)
                      +|..+++...... +-...+|+-|.-.|++-  ++..+.++.|..  +.+++|      +...|..+...|.+.++++.|
T Consensus       225 Eai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A  301 (449)
T 1b89_A          225 ELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  301 (449)
T ss_dssp             HHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            9999999999876 45788899888888775  233334444331  112222      567799999999999999988


Q ss_pred             HHH
Q 038490          313 FTI  315 (344)
Q Consensus       313 ~~~  315 (344)
                      ...
T Consensus       302 ~~t  304 (449)
T 1b89_A          302 IIT  304 (449)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            774

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=1.8e-15  Score=131.42  Aligned_cols=269  Identities=10%  Similarity=-0.036  Sum_probs=137.8

Q ss_pred             hhhHHHHHHHHHh----cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCCCH
Q 038490           47 LLHYDLIITKLGR----AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR----ARLLERALQMFDEMSSFNVQMTV  118 (344)
Q Consensus        47 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  118 (344)
                      ..++..+...|..    .+++++|...|++....+    +...+..+...|..    .++.++|.+.|++..+.|   +.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~  183 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG----RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NV  183 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            3344444444444    444444444444444321    23334444444443    444555555555444432   33


Q ss_pred             HHHHHHHHHHHh----cCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhH
Q 038490          119 KFFNTLLNPKLT----CGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTF  190 (344)
Q Consensus       119 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  190 (344)
                      ..+..+...|..    .++.++|...|++..+.  .+..++..+...|..    .+++++|..+|++..+.|   +...+
T Consensus       184 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  258 (490)
T 2xm6_A          184 WSCNQLGYMYSRGLGVERNDAISAQWYRKSATS--GDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQ  258 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHH
T ss_pred             HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            444444444444    45555555555554433  233344444444443    455555555555555443   22333


Q ss_pred             HHHHHHHHh----hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHH
Q 038490          191 GTLIYGLCL----ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV-----GELSLALGVKEEMVRDKIEMDAGIY  261 (344)
Q Consensus       191 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~  261 (344)
                      ..+...+..    .++.++|+..|++..+.    .+...+..+...|...     +++++|...+++..+.+   +...+
T Consensus       259 ~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~  331 (490)
T 2xm6_A          259 FRLGYILEQGLAGAKEPLKALEWYRKSAEQ----GNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQ  331 (490)
T ss_dssp             HHHHHHHHHTTTSSCCHHHHHHHHHHHHTT----TCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHH
Confidence            344444444    55666666666655432    2344455555555554     56666666666666553   34455


Q ss_pred             HHHHHHHHHcC---CcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHhhCCCCCChhhHHHH
Q 038490          262 SSLISALFKAG---RKNEFPAILKEMKERGCKPNSVTYNALISGFCK----EEDFEAAFTILDEMGDKGCKANPISYNVI  334 (344)
Q Consensus       262 ~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  334 (344)
                      ..+...|...|   +.++|...|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..|
T Consensus       332 ~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~L  405 (490)
T 2xm6_A          332 ANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQL  405 (490)
T ss_dssp             HHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHH
Confidence            55555555544   5566666666666653   45566666666666    667777777777776654   34455555


Q ss_pred             HHHHhh
Q 038490          335 LGGLCK  340 (344)
Q Consensus       335 l~~~~~  340 (344)
                      -..|.+
T Consensus       406 g~~y~~  411 (490)
T 2xm6_A          406 GEIYYY  411 (490)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.78  E-value=4e-17  Score=130.46  Aligned_cols=247  Identities=10%  Similarity=-0.071  Sum_probs=161.7

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC--CHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQM--TVKFFNTL  124 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  124 (344)
                      ...+......+...|++++|+..|++..+..  +.+...+..+..++...|++++|+..++...+.+-.+  ....|..+
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            3445566677777777777777777777642  3344567777777777777777777777777632111  13346777


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      ..++...|++++|...+++.....+.+..++..+...|...|++++|...|++..+.. +.+...+..+...+...++++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777777777666666777777777777888888888777776652 224455555552344455788


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHHcCCc
Q 038490          205 EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE---LSLALGVKEEMVRDK-IEMD------AGIYSSLISALFKAGRK  274 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~  274 (344)
                      +|...++++++..  +.+...+..+..++...|+   +++|...+++..+.. ..|+      ..+|..+...|...|++
T Consensus       160 ~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          160 KADSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            8888887776653  3345666667777777776   677777777766532 1122      24666777777888888


Q ss_pred             CcHHHHHHHHHHcCCCCChhhHHHH
Q 038490          275 NEFPAILKEMKERGCKPNSVTYNAL  299 (344)
Q Consensus       275 ~~a~~~~~~~~~~~~~p~~~~~~~l  299 (344)
                      ++|...+++..+..+. +......+
T Consensus       238 ~~A~~~~~~al~~~p~-~~~a~~~l  261 (272)
T 3u4t_A          238 VKADAAWKNILALDPT-NKKAIDGL  261 (272)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcc-HHHHHHHh
Confidence            8888888887776422 44444433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=1.8e-17  Score=132.68  Aligned_cols=249  Identities=10%  Similarity=-0.027  Sum_probs=196.3

Q ss_pred             HhcCCchHHHHHHHHhhhcCCCC--CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490           58 GRAKMFDEMQQILHQLKHDTRIV--PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLD  135 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  135 (344)
                      ...|++++|+..++++.+.....  .+..++..+...+...|++++|...|+++.+.+ +.+..++..+..++...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            34578999999999998752111  245778889999999999999999999999886 667899999999999999999


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHH
Q 038490          136 RMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       136 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                      +|...++++....+.+..++..+..+|.+.|++++|...|+++.+.  .|+.......+..+...|++++|...+.+...
T Consensus        95 ~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           95 AAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            9999999999888878899999999999999999999999999876  34444444455566778999999999988777


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC
Q 038490          216 VYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM---DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN  292 (344)
Q Consensus       216 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  292 (344)
                      ..  +++...+ .++..+...++.++|...++.........   +...+..+...|...|++++|...|++.....  |+
T Consensus       173 ~~--~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~  247 (275)
T 1xnf_A          173 KS--DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VH  247 (275)
T ss_dssp             HS--CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CT
T ss_pred             cC--CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--ch
Confidence            53  3343334 36677778888899999999887653321   25778889999999999999999999998863  32


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHH
Q 038490          293 SVTYNALISGFCKEEDFEAAFTIL  316 (344)
Q Consensus       293 ~~~~~~l~~~~~~~~~~~~a~~~~  316 (344)
                      .  +.....++...|++++|++.+
T Consensus       248 ~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 N--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             T--CHHHHHHHHHHHHHHHC----
T ss_pred             h--HHHHHHHHHHHHHHHhhHHHH
Confidence            2  333455677788888887765

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=3.1e-15  Score=129.90  Aligned_cols=298  Identities=10%  Similarity=-0.037  Sum_probs=240.9

Q ss_pred             hhhhhhhhcc----cCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHh----cCCchHHHHHHHHhhhc
Q 038490            5 SIRLACLPRL----QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGR----AKMFDEMQQILHQLKHD   76 (344)
Q Consensus         5 ~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~   76 (344)
                      ...++..+..    .+++++|+..|+.....+             +..++..+...|..    .+++++|.++|++..+.
T Consensus        42 ~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~-------------~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~  108 (490)
T 2xm6_A           42 QLELGYRYFQGNETTKDLTQAMDWFRRAAEQG-------------YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK  108 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC-------------CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            4456666666    889999999999874433             67788889999998    89999999999998775


Q ss_pred             CCCCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHhccC
Q 038490           77 TRIVPKEIIFCNVIGFYGR----ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT----CGKLDRMKELFQIMEKYV  148 (344)
Q Consensus        77 ~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  148 (344)
                          .+...+..|...|..    .+++++|.+.|++..+.|   +...+..|...|..    .++.++|...|++..+. 
T Consensus       109 ----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~-  180 (490)
T 2xm6_A          109 ----GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ-  180 (490)
T ss_dssp             ----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-
T ss_pred             ----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-
Confidence                256677778888887    789999999999998865   56677888888887    78999999999998775 


Q ss_pred             CCCcccHHHHHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh----hchHHHHHHHHHHHHHhcCCC
Q 038490          149 SPDACSYNILIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL----ELRVDEALKLKEDIMRVYNVK  220 (344)
Q Consensus       149 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~  220 (344)
                       .+...+..+...|..    .++.++|..+|++..+.|   +...+..+...+..    .+++++|...|++..+.    
T Consensus       181 -~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~----  252 (490)
T 2xm6_A          181 -GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ----  252 (490)
T ss_dssp             -TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT----
T ss_pred             -CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----
Confidence             467788888888887    899999999999998875   45566677777775    78999999999997653    


Q ss_pred             CCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-----CCcCcHHHHHHHHHHcCCCC
Q 038490          221 PDGQVFASLIKGLCA----VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKA-----GRKNEFPAILKEMKERGCKP  291 (344)
Q Consensus       221 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~p  291 (344)
                      .+...+..+...+..    .+++++|...|++..+.+   +...+..+...|...     +++++|...|++..+.|   
T Consensus       253 ~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---  326 (490)
T 2xm6_A          253 GNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---  326 (490)
T ss_dssp             TCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---
Confidence            355677777777777    899999999999998764   567778888888887     89999999999998875   


Q ss_pred             ChhhHHHHHHHHhccC---CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhh
Q 038490          292 NSVTYNALISGFCKEE---DFEAAFTILDEMGDKGCKANPISYNVILGGLCK  340 (344)
Q Consensus       292 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  340 (344)
                      +...+..+...|...|   +.++|.++|++..+.|   +...+..|-..|..
T Consensus       327 ~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~  375 (490)
T 2xm6_A          327 DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQ  375 (490)
T ss_dssp             CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHc
Confidence            4567777777777756   7899999999998874   56677777666655

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=7.9e-17  Score=126.45  Aligned_cols=202  Identities=12%  Similarity=0.043  Sum_probs=112.4

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTL  124 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  124 (344)
                      .....|..+...+...|++++|...|+++.+.  .+.+...+..+...+...|++++|...++++.+.. +.+..++..+
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   97 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEE--NKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGA   97 (243)
T ss_dssp             ---------------------CCTTHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHH
Confidence            35556667777777777777777777777664  24456666777777777777777777777777664 4456666777


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      ...+...|++++|...++++.+..+.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            7777777777777777777666655555666666666666666666666666665542 224445555555555566666


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          205 EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +|...++++++..  +.+..++..+..++.+.|++++|...++++.+.
T Consensus       177 ~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          177 EALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            6666665555432  233445555555555555555555555555554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.77  E-value=5.2e-16  Score=123.98  Aligned_cols=247  Identities=11%  Similarity=-0.020  Sum_probs=197.6

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcc----cHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDAC----SYNIL  158 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~l  158 (344)
                      ...+......+...|++++|+..|++..+.. +.+...+..+..++...|++++|...+++..... ++..    +|..+
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~l   80 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV-NATKAKSADFEYY   80 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc-CchhHHHHHHHHH
Confidence            3445667788899999999999999999876 5566689999999999999999999999998843 3333    38899


Q ss_pred             HHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490          159 IHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE  238 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  238 (344)
                      ...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++.++.  .+.+...+..+...+...++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~  157 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKE  157 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999998864 336678889999999999999999999987654  24467777777734445569


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---cCcHHHHHHHHHHcC-CCCC------hhhHHHHHHHHhccCC
Q 038490          239 LSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGR---KNEFPAILKEMKERG-CKPN------SVTYNALISGFCKEED  308 (344)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~-~~p~------~~~~~~l~~~~~~~~~  308 (344)
                      +++|...++++.+..+. +...+..+...+...|+   +++|...+++..+.. -.|+      ...|..+...|...|+
T Consensus       158 ~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          158 YVKADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            99999999999987644 67888889999999998   888999999887652 1233      2577888899999999


Q ss_pred             HHHHHHHHHHHhhCCCCC-ChhhHHHHHHH
Q 038490          309 FEAAFTILDEMGDKGCKA-NPISYNVILGG  337 (344)
Q Consensus       309 ~~~a~~~~~~~~~~~~~p-~~~~~~~ll~~  337 (344)
                      +++|...+++..+.  .| +...+..+-..
T Consensus       237 ~~~A~~~~~~al~~--~p~~~~a~~~l~~~  264 (272)
T 3u4t_A          237 KVKADAAWKNILAL--DPTNKKAIDGLKMK  264 (272)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHC--
T ss_pred             HHHHHHHHHHHHhc--CccHHHHHHHhhhh
Confidence            99999999999985  35 44444444333

>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=99.77  E-value=2.6e-16  Score=131.06  Aligned_cols=250  Identities=7%  Similarity=0.002  Sum_probs=200.0

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhccc-HHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARL-LERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      +.+..+|..+..++...|++++|++.++++....  +-+...|..+..++...|+ +++|+..|+++++.+ +-+..+|.
T Consensus        94 p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~  170 (382)
T 2h6f_A           94 DKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWH  170 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHH
Confidence            3456778889999999999999999999998853  4457888889999999996 999999999999887 66888999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh-hc
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL-EL  201 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~  201 (344)
                      .+..++...|++++|+..|+++....+.+..+|..+..++.+.|++++|+..++++.+.... +...|+.+..++.. .|
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~  249 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTG  249 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999988889999999999999999999999999999887433 67788888888888 56


Q ss_pred             hHHHH-----HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC--
Q 038490          202 RVDEA-----LKLKEDIMRVYNVKPDGQVFASLIKGLCAVG--ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAG--  272 (344)
Q Consensus       202 ~~~~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--  272 (344)
                      ..++|     +..+++.++..  +.+...|..+...+.+.|  ++++|.+.+.++ +.. +.+...+..+...|.+.|  
T Consensus       250 ~~~eA~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~  325 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLEN  325 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcc
Confidence            54666     47788877653  446778888888888877  688888888887 443 336778888888888864  


Q ss_pred             -------CcCcHHHHHHHH-HHcCCCCC-hhhHHHHHHHH
Q 038490          273 -------RKNEFPAILKEM-KERGCKPN-SVTYNALISGF  303 (344)
Q Consensus       273 -------~~~~a~~~~~~~-~~~~~~p~-~~~~~~l~~~~  303 (344)
                             ..++|+.+++++ .+.  .|. ...|..+...+
T Consensus       326 ~~~~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          326 QCDNKEDILNKALELCEILAKEK--DTIRKEYWRYIGRSL  363 (382)
T ss_dssp             TCSSHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHH
Confidence                   247888888888 554  343 34455444444

>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=99.76  E-value=7.1e-16  Score=121.77  Aligned_cols=198  Identities=14%  Similarity=-0.034  Sum_probs=88.3

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..+...+...|++++|.+.|+++.+.. +.+..++..+..++...|++++|...++++....+.+...+..+...|...
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~  118 (252)
T 2ho1_A           40 YIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQ  118 (252)
T ss_dssp             HHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHH
Confidence            3333444444444444444444444332 233344444444444444444444444444443333344444444444444


Q ss_pred             CChhHHHHHHHHHhhCCCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALG  244 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  244 (344)
                      |++++|.+.++++.+.+..| +...+..+...+...|++++|...++++++..  +.+...+..+...+...|++++|..
T Consensus       119 g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~  196 (252)
T 2ho1_A          119 KRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPARQ  196 (252)
T ss_dssp             TCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHH
Confidence            55555555554444411122 22334444444445555555555555444332  2234444444555555555555555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          245 VKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .++++.+... .+...+..+...+...|+.++|.+.++++.+.
T Consensus       197 ~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          197 YYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            5555444332 23444444444445555555555555554443

>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=99.76  E-value=8.9e-16  Score=121.20  Aligned_cols=202  Identities=6%  Similarity=-0.091  Sum_probs=177.9

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...|..+...+...|++++|.+.|+++....  +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID--PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHH
Confidence            6788999999999999999999999998752  4567888999999999999999999999999876 567889999999


Q ss_pred             HHHhcCChHHHHHHHHHHhc--cCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          127 PKLTCGKLDRMKELFQIMEK--YVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      .+...|++++|...++++..  ..+.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999988  444566788889999999999999999999998764 335778888999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 038490          205 EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI  254 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  254 (344)
                      +|...++++++.  .+.+...+..+...+...|++++|.+.++++.+..+
T Consensus       193 ~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p  240 (252)
T 2ho1_A          193 PARQYYDLFAQG--GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHHHHHTT--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHh--CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence            999999998764  356678888999999999999999999999988743

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.76  E-value=1.5e-15  Score=117.56  Aligned_cols=98  Identities=8%  Similarity=0.006  Sum_probs=44.1

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +..+|..+...+...|++++|.+.++++.+..  +.+...+..+...+...|++++|.+.++++.+.. +.+..++..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD--PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            34444444445555555555555555444431  2233444444444444444444444444444433 23334444444


Q ss_pred             HHHHhc-CChHHHHHHHHHHhc
Q 038490          126 NPKLTC-GKLDRMKELFQIMEK  146 (344)
Q Consensus       126 ~~~~~~-~~~~~a~~~~~~~~~  146 (344)
                      .++... |++++|...++++..
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~  105 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALA  105 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHHHHHHc
Confidence            444444 444444444444433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.76  E-value=1.9e-15  Score=116.90  Aligned_cols=214  Identities=11%  Similarity=-0.069  Sum_probs=183.8

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      .+...+..+...+...|++++|.+.++.+.+.. +.+...+..+..++...|++++|...++++....+.+..++..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~   84 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            346778889999999999999999999999876 6678899999999999999999999999998887778889999999


Q ss_pred             HHHhh-CChhHHHHHHHHHhhCCCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490          161 GCVVS-RRLEDAWKVFDEMVKRRLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE  238 (344)
Q Consensus       161 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  238 (344)
                      .+... |++++|...++++.+.+..| +...+..+...+...|++++|...++++++..  +.+...+..+..++.+.|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCC
Confidence            99999 99999999999998832333 35677888889999999999999999988753  4568889999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHH
Q 038490          239 LSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNAL  299 (344)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  299 (344)
                      +++|...++++.+..+..+...+..+...+...|+.+++..+++.+....  |+......+
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~  221 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF--PYSEELQTV  221 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHH
Confidence            99999999999987652478888888889999999999999999998763  454444433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.76  E-value=2e-16  Score=124.11  Aligned_cols=202  Identities=14%  Similarity=0.044  Sum_probs=137.7

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      ....+..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++....+.+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            44556677777888888888888888888765 55677888888888888888888888888877766677778888888


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                      +...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++++..  +.+...+..+...+.+.|++++
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888877653 2356667777777778888888888888776643  3456677777777777888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          242 ALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      |...++++.+.... +..++..+...+...|++++|...++++.+..
T Consensus       178 A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          178 ALSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            88888777766433 56677777777777777777777777777653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.76  E-value=1.1e-15  Score=132.10  Aligned_cols=312  Identities=11%  Similarity=-0.019  Sum_probs=221.9

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcC----C-
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDT----R-   78 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-   78 (344)
                      .+..++.++...|++++|++.|++...-...  .......+....+|+.+..+|...|++++|...+++..+..    + 
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~--~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQ--EHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH--HSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHh--cCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            3567889999999999999999875321000  00011123356789999999999999999999998875421    0 


Q ss_pred             CCC-chhHHHHHHHHHHh--cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH---HhcCChHHHHHHHHHHhccCCCCc
Q 038490           79 IVP-KEIIFCNVIGFYGR--ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK---LTCGKLDRMKELFQIMEKYVSPDA  152 (344)
Q Consensus        79 ~~~-~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~  152 (344)
                      ..+ ...++.....++..  .+++++|+..|++..+.. |-+...+..+..++   ...++.++|+..+++..+..+.+.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~  209 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQ  209 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcch
Confidence            111 24556555544444  457999999999999876 55666666665553   456778889999999888777777


Q ss_pred             ccHHHHHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490          153 CSYNILIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFAS  228 (344)
Q Consensus       153 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (344)
                      .++..+...+..    .|++++|.+.+++..... +.+...+..+...+...|++++|...++++++..  +.+..++..
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~  286 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHH
Confidence            777766655544    467889999999988764 3466778889999999999999999999988763  445667776


Q ss_pred             HHHHHHhc-------------------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCC
Q 038490          229 LIKGLCAV-------------------GELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGC  289 (344)
Q Consensus       229 l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  289 (344)
                      +..+|...                   +..+.|...++...+.++. +...+..+...+...|++++|+..|++..+...
T Consensus       287 lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            66555322                   2356788888888876544 667788899999999999999999999988754


Q ss_pred             CCChh--hHHHHHH-HHhccCCHHHHHHHHHHHhhC
Q 038490          290 KPNSV--TYNALIS-GFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       290 ~p~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      .|...  .+..+.. .....|+.++|+..|++..+.
T Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          366 TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS
T ss_pred             CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            43221  2233332 335779999999999887653

>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=1.4e-15  Score=126.62  Aligned_cols=248  Identities=10%  Similarity=0.053  Sum_probs=208.5

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK-LDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      ...|..+..++...|++++|++.++++++.. +-+..+|+.+..++...|+ +++|+..|+++....+.+...|..+..+
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            4567788888999999999999999999987 6778999999999999997 9999999999999988899999999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-cCChH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA-VGELS  240 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  240 (344)
                      +...|++++|+..|+++.+.... +...|..+..++...|++++|+..++++++..  +.+...|+.+..++.+ .|..+
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999987433 77888889999999999999999999998864  5578899999999998 66657


Q ss_pred             HH-----HHHHHHHHHCCCCCCHHHHHHHHHHHHHcC--CcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccC------
Q 038490          241 LA-----LGVKEEMVRDKIEMDAGIYSSLISALFKAG--RKNEFPAILKEMKERGCKPNSVTYNALISGFCKEE------  307 (344)
Q Consensus       241 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~------  307 (344)
                      +|     +..+++.+...+. +...|+.+...+...|  ++++|++.+.++ +.. +.+...+..+...|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccc
Confidence            77     5889999887655 7889999999999888  689999999888 432 336677888888888864      


Q ss_pred             ---CHHHHHHHHHHH-hhCCCCCC-hhhHHHHHHHHh
Q 038490          308 ---DFEAAFTILDEM-GDKGCKAN-PISYNVILGGLC  339 (344)
Q Consensus       308 ---~~~~a~~~~~~~-~~~~~~p~-~~~~~~ll~~~~  339 (344)
                         ..++|..+++++ .+.  .|. ...|..+...+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEK--DTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHH
Confidence               358999999999 553  453 345665555543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.74  E-value=4.7e-17  Score=130.21  Aligned_cols=259  Identities=8%  Similarity=-0.079  Sum_probs=199.2

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++......|++++|+..|+.+....+       ...+.+..+|..+...+...|++++|...|+++.+..  +.+..+
T Consensus         9 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~   79 (275)
T 1xnf_A            9 EVLAVPLQPTLQQEVILARMEQILASRA-------LTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEV   79 (275)
T ss_dssp             GGSCCCCCCCHHHHHHHHHHHHHHTSSC-------CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHH
T ss_pred             cceeeccCccchHHHHHHHHHHHHhccc-------ccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC--CCcHHH
Confidence            3455667788999999999999755421       1123467889999999999999999999999998863  456788


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..+...+...|++++|...|+++.+.. +.+..++..+..++...|++++|...++++....+.+. .....+..+...
T Consensus        80 ~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~-~~~~~~~~~~~~  157 (275)
T 1xnf_A           80 FNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDP-FRSLWLYLAEQK  157 (275)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCh-HHHHHHHHHHHh
Confidence            9999999999999999999999999876 56788999999999999999999999999988665443 444455566778


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC-CC-CCHHHHHHHHHHHHhcCChHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN-VK-PDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      |++++|...+++..... +++...+ .++..+...++.++|...+...++... .. .+...+..+..++.+.|++++|.
T Consensus       158 ~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  235 (275)
T 1xnf_A          158 LDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSAT  235 (275)
T ss_dssp             HCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHH
Confidence            99999999998887763 3344444 466677788888999999988653210 00 12577888999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHH
Q 038490          244 GVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL  281 (344)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  281 (344)
                      ..+++.....+. +..   ....++...|++++|+..+
T Consensus       236 ~~~~~al~~~p~-~~~---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          236 ALFKLAVANNVH-NFV---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHTTCCT-TCH---HHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHhCCch-hHH---HHHHHHHHHHHHHhhHHHH
Confidence            999999987532 322   3355667777777777665

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.74  E-value=3.6e-16  Score=132.27  Aligned_cols=297  Identities=13%  Similarity=0.017  Sum_probs=224.7

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHhc----CCCC
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK----EIIFCNVIGFYGRARLLERALQMFDEMSSF----NVQM  116 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  116 (344)
                      .....+......+...|++++|...|++..+..  +.+    ..++..+...+...|++++|...+++....    +-.|
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            366677888999999999999999999998863  223    356778899999999999999999987643    2112


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CC----cccHHHHHHHHHhhCC--------------------hh
Q 038490          117 -TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PD----ACSYNILIHGCVVSRR--------------------LE  169 (344)
Q Consensus       117 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~----~~~~~~l~~~~~~~~~--------------------~~  169 (344)
                       ...++..+...+...|++++|...+++.....+  .+    ..++..+...|...|+                    ++
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             255788888999999999999999988765433  22    4478888899999999                    99


Q ss_pred             HHHHHHHHHhhC----CCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChH
Q 038490          170 DAWKVFDEMVKR----RLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELS  240 (344)
Q Consensus       170 ~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~  240 (344)
                      +|...+++....    +..+ ...++..+...+...|++++|...+++.++...-.++    ..++..+...+...|+++
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            999999886542    2111 2346777888899999999999999998764322233    347888889999999999


Q ss_pred             HHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCC-CC----hhhHHHHHHHHhccCCHH
Q 038490          241 LALGVKEEMVRDKIE-MD----AGIYSSLISALFKAGRKNEFPAILKEMKERGCK-PN----SVTYNALISGFCKEEDFE  310 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~  310 (344)
                      +|...+++..+.... .+    ..++..+...|...|++++|...+++....... ++    ..++..+...|...|+++
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            999999998753211 11    567888999999999999999999988654111 11    456778888999999999


Q ss_pred             HHHHHHHHHhhC----CCCC-ChhhHHHHHHHHhhcCC
Q 038490          311 AAFTILDEMGDK----GCKA-NPISYNVILGGLCKDGK  343 (344)
Q Consensus       311 ~a~~~~~~~~~~----~~~p-~~~~~~~ll~~~~~~g~  343 (344)
                      +|...+++..+.    +-.+ ...++..+...+...|+
T Consensus       325 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  362 (406)
T 3sf4_A          325 QAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGL  362 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhH
Confidence            999999987642    2122 24456666666665553

>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=99.74  E-value=2.5e-14  Score=114.32  Aligned_cols=224  Identities=11%  Similarity=-0.014  Sum_probs=181.8

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHhcCCCCCHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR----ARLLERALQMFDEMSSFNVQMTVKFF  121 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  121 (344)
                      +..++..+...+...|++++|.+.|++..+.    .+...+..+...+..    .+++++|...|++..+.+   +...+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL----KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            6778888888999999999999999988773    345677778888888    999999999999988865   67788


Q ss_pred             HHHHHHHHh----cCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhHHHH
Q 038490          122 NTLLNPKLT----CGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTFGTL  193 (344)
Q Consensus       122 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  193 (344)
                      ..+...|..    .+++++|...|++..+.+  +..++..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK--YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            888888888    899999999998887753  66778888888888    889999999999888875   45566667


Q ss_pred             HHHHHh----hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 038490          194 IYGLCL----ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA----VGELSLALGVKEEMVRDKIEMDAGIYSSLI  265 (344)
Q Consensus       194 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  265 (344)
                      ...+..    .+++++|...+++..+.    .+...+..+...|..    .+++++|...+++..+.+   +...+..+.
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~  225 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  225 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            777777    78889999988887764    345677778888888    888888988888888764   366777788


Q ss_pred             HHHHH----cCCcCcHHHHHHHHHHcC
Q 038490          266 SALFK----AGRKNEFPAILKEMKERG  288 (344)
Q Consensus       266 ~~~~~----~g~~~~a~~~~~~~~~~~  288 (344)
                      ..|..    .+++++|...|++..+.|
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            88888    888888888888888775

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.73  E-value=3.1e-16  Score=133.07  Aligned_cols=276  Identities=13%  Similarity=-0.007  Sum_probs=214.4

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch----hHHHHHHHHHHhcccHHHHHHHHHHHHhc----C-CC
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE----IIFCNVIGFYGRARLLERALQMFDEMSSF----N-VQ  115 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~  115 (344)
                      .....+..+...+...|++++|+..|+++.+..  +.+.    ..+..+...+...|++++|...+++..+.    + .+
T Consensus        46 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  123 (411)
T 4a1s_A           46 SMCLELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRL  123 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCch
Confidence            355566778889999999999999999998863  2232    46788899999999999999999988753    1 12


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhccC------CCCcccHHHHHHHHHhhCC-----------------hhHHH
Q 038490          116 MTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV------SPDACSYNILIHGCVVSRR-----------------LEDAW  172 (344)
Q Consensus       116 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~-----------------~~~a~  172 (344)
                      ....++..+...|...|++++|...+++.....      +....++..+...|...|+                 +++|.
T Consensus       124 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~  203 (411)
T 4a1s_A          124 GEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAV  203 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHH
Confidence            345678889999999999999999998876542      1334578888999999999                 99999


Q ss_pred             HHHHHHhhC----CC-CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHH
Q 038490          173 KVFDEMVKR----RL-QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       173 ~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      ..+++..+.    +. ......+..+...+...|++++|...+++.++...-..+    ..++..+...+...|++++|.
T Consensus       204 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  283 (411)
T 4a1s_A          204 EFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAA  283 (411)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHH
Confidence            998886542    11 112346777888899999999999999988764322222    237788899999999999999


Q ss_pred             HHHHHHHHCCCC-----CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCC-----CCChhhHHHHHHHHhccCCHHHHH
Q 038490          244 GVKEEMVRDKIE-----MDAGIYSSLISALFKAGRKNEFPAILKEMKERGC-----KPNSVTYNALISGFCKEEDFEAAF  313 (344)
Q Consensus       244 ~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-----~p~~~~~~~l~~~~~~~~~~~~a~  313 (344)
                      ..+++.......     ....++..+...+...|++++|...+++......     .....++..+...|...|++++|.
T Consensus       284 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  363 (411)
T 4a1s_A          284 EHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERAL  363 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHH
Confidence            999988764221     1256788899999999999999999998865411     112346778889999999999999


Q ss_pred             HHHHHHhhC
Q 038490          314 TILDEMGDK  322 (344)
Q Consensus       314 ~~~~~~~~~  322 (344)
                      ..+++..+.
T Consensus       364 ~~~~~al~~  372 (411)
T 4a1s_A          364 KYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.72  E-value=6.9e-16  Score=126.88  Aligned_cols=275  Identities=13%  Similarity=0.018  Sum_probs=211.2

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHhc----CC-CC
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK----EIIFCNVIGFYGRARLLERALQMFDEMSSF----NV-QM  116 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~  116 (344)
                      +...+......+...|++++|...|+++.+..  +.+    ...+..+...+...|++++|.+.+++..+.    +- +.
T Consensus         4 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   81 (338)
T 3ro2_A            4 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   81 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHH
Confidence            34456677888999999999999999998853  223    356778899999999999999999987643    21 22


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CC----cccHHHHHHHHHhhCC--------------------hhH
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PD----ACSYNILIHGCVVSRR--------------------LED  170 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~----~~~~~~l~~~~~~~~~--------------------~~~  170 (344)
                      ...++..+...+...|++++|...+++.....+  .+    ..++..+...+...|+                    +++
T Consensus        82 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (338)
T 3ro2_A           82 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQA  161 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHH
Confidence            356788889999999999999999988765433  22    3377888899999999                    999


Q ss_pred             HHHHHHHHhhC----CCC-cCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHH
Q 038490          171 AWKVFDEMVKR----RLQ-PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       171 a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~  241 (344)
                      |...+++....    +.. .....+..+...+...|++++|...+++.++.....++    ..++..+...+...|++++
T Consensus       162 A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  241 (338)
T 3ro2_A          162 AVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  241 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHH
Confidence            99998886542    111 12346777788889999999999999987754322222    3477888889999999999


Q ss_pred             HHHHHHHHHHCCCC-CC----HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCC----C-CChhhHHHHHHHHhccCCHHH
Q 038490          242 ALGVKEEMVRDKIE-MD----AGIYSSLISALFKAGRKNEFPAILKEMKERGC----K-PNSVTYNALISGFCKEEDFEA  311 (344)
Q Consensus       242 a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~-p~~~~~~~l~~~~~~~~~~~~  311 (344)
                      |...+++..+.... .+    ..++..+...+...|++++|...+++......    . ....++..+...+...|++++
T Consensus       242 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  321 (338)
T 3ro2_A          242 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQ  321 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            99999988753211 11    56778889999999999999999998865411    1 113467788899999999999


Q ss_pred             HHHHHHHHhhC
Q 038490          312 AFTILDEMGDK  322 (344)
Q Consensus       312 a~~~~~~~~~~  322 (344)
                      |...+++..+.
T Consensus       322 A~~~~~~a~~~  332 (338)
T 3ro2_A          322 AMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            99999999864

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.72  E-value=1.1e-13  Score=121.47  Aligned_cols=203  Identities=7%  Similarity=0.003  Sum_probs=147.0

Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHh-------hCChh-------HHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc
Q 038490          136 RMKELFQIMEKYVSPDACSYNILIHGCVV-------SRRLE-------DAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL  201 (344)
Q Consensus       136 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  201 (344)
                      .+..+|++.....+.+...|..++..+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+.|
T Consensus       256 ~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g  335 (530)
T 2ooe_A          256 RVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM  335 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC
Confidence            33445555555444556666666666665       68877       89999999886322335777888888888999


Q ss_pred             hHHHHHHHHHHHHHhcCCCCC-H-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHHcCCcCcHH
Q 038490          202 RVDEALKLKEDIMRVYNVKPD-G-QVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISA-LFKAGRKNEFP  278 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~  278 (344)
                      ++++|..+|+++++.   .|+ . ..|..++..+.+.|++++|..+|++..+.... +...|...+.. +...|+.++|.
T Consensus       336 ~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          336 KYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             CHHHHHHHHHHHHHS---SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CHHHHHHHHHHHhCc---cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHH
Confidence            999999999998864   443 3 57888888888899999999999999886432 33444333222 34689999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCC-CCCC--hhhHHHHHHHHhhcCC
Q 038490          279 AILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKG-CKAN--PISYNVILGGLCKDGK  343 (344)
Q Consensus       279 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~p~--~~~~~~ll~~~~~~g~  343 (344)
                      .+|++..+... -+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+
T Consensus       412 ~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          412 KIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            99999887642 267888899999999999999999999998763 2232  3367777776666665

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.72  E-value=3.7e-14  Score=113.31  Aligned_cols=224  Identities=11%  Similarity=-0.047  Sum_probs=197.0

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHhccCCCCcccHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT----CGKLDRMKELFQIMEKYVSPDACSYNI  157 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (344)
                      +..++..+...+...|++++|.+.|++..+.   .+...+..+...+..    .+++++|...|++..+.+  +..++..
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~   79 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCHL   79 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC--CHHHHHH
Confidence            5677888889999999999999999999983   456788889999999    999999999999998764  7788889


Q ss_pred             HHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHh----hchHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490          158 LIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCL----ELRVDEALKLKEDIMRVYNVKPDGQVFASL  229 (344)
Q Consensus       158 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  229 (344)
                      +...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|+..+++..+..    +...+..+
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~l  152 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN----DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT----CHHHHHHH
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC----cHHHHHHH
Confidence            9999999    999999999999999875   67778888888888    999999999999988742    56778888


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCcCcHHHHHHHHHHcCCCCChhhHHHHHH
Q 038490          230 IKGLCA----VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFK----AGRKNEFPAILKEMKERGCKPNSVTYNALIS  301 (344)
Q Consensus       230 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  301 (344)
                      ...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            888888    899999999999999874   56788889999999    999999999999999874   3667788888


Q ss_pred             HHhc----cCCHHHHHHHHHHHhhCC
Q 038490          302 GFCK----EEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       302 ~~~~----~~~~~~a~~~~~~~~~~~  323 (344)
                      .|..    .+++++|...|++..+.|
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            8988    999999999999999875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.69  E-value=1.6e-13  Score=111.71  Aligned_cols=237  Identities=9%  Similarity=0.030  Sum_probs=180.0

Q ss_pred             chhhHHHHHHHHHhc----CCc----hHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh-------cccH-------HHHH
Q 038490           46 NLLHYDLIITKLGRA----KMF----DEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR-------ARLL-------ERAL  103 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~  103 (344)
                      +...|...+....+.    ++.    ++|..+|++....  .+.+...|..++..+..       .|++       ++|.
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~--~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~   84 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAA   84 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHH
Confidence            455677777665443    232    6788899998875  25567778777777653       4765       8999


Q ss_pred             HHHHHHHh-cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcc-cHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          104 QMFDEMSS-FNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDAC-SYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       104 ~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      .+|++..+ .. +.+...|..++..+...|++++|..+|++..+..+.+.. .|..++..+.+.|++++|..+|++..+.
T Consensus        85 ~~~~rAl~~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  163 (308)
T 2ond_A           85 NIYERAISTLL-KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  163 (308)
T ss_dssp             HHHHHHHTTTT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            99999988 44 556778999999999999999999999999886655554 7888888899999999999999998876


Q ss_pred             CCCcCHhhHHHHHHHHH-hhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCC--C
Q 038490          182 RLQPTLVTFGTLIYGLC-LELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK-IEM--D  257 (344)
Q Consensus       182 ~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~  257 (344)
                      +. .+...|........ ..|+.++|..+|++.++..  +.+...|..++..+.+.|++++|..+|++..... .+|  .
T Consensus       164 ~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~  240 (308)
T 2ond_A          164 AR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKS  240 (308)
T ss_dssp             TT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGC
T ss_pred             CC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHH
Confidence            42 33444443332222 3689999999999888764  4567888888888889999999999999998863 333  5


Q ss_pred             HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          258 AGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       258 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      ...|..++....+.|+.++|..+++++.+..
T Consensus       241 ~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~  271 (308)
T 2ond_A          241 GEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            6788888888888999999999999888763

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.68  E-value=1e-13  Score=112.73  Aligned_cols=217  Identities=7%  Similarity=0.038  Sum_probs=180.2

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHH-------hcCCh-------HHHHHHHHHHhc-cCCCCcccHHHHHHHHHh
Q 038490          100 ERALQMFDEMSSFNVQMTVKFFNTLLNPKL-------TCGKL-------DRMKELFQIMEK-YVSPDACSYNILIHGCVV  164 (344)
Q Consensus       100 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~  164 (344)
                      ++|..+|++..... +.+...|..++..+.       ..|++       ++|..+|++... ..+.+...|..++..+.+
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            78889999998875 678888988888776       35886       899999999998 466677799999999999


Q ss_pred             hCChhHHHHHHHHHhhCCCCcC-Hh-hHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH-hcCChHH
Q 038490          165 SRRLEDAWKVFDEMVKRRLQPT-LV-TFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLC-AVGELSL  241 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~  241 (344)
                      .|++++|..+|+++.+.  .|+ .. .|..+...+.+.|++++|..+|+++++..  +.+...|........ ..|++++
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 78888889999999999999999987643  344455554443322 3799999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC-CCC--ChhhHHHHHHHHhccCCHHHHHHHHHH
Q 038490          242 ALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG-CKP--NSVTYNALISGFCKEEDFEAAFTILDE  318 (344)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~  318 (344)
                      |..+|++..+..+. +...|..++..+.+.|++++|..+|++..... +.|  ....|..++....+.|+.+.|..++++
T Consensus       188 A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999987544 78899999999999999999999999999863 344  456788889999999999999999999


Q ss_pred             HhhC
Q 038490          319 MGDK  322 (344)
Q Consensus       319 ~~~~  322 (344)
                      +.+.
T Consensus       267 a~~~  270 (308)
T 2ond_A          267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9874

>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=99.68  E-value=1e-13  Score=128.01  Aligned_cols=274  Identities=13%  Similarity=0.106  Sum_probs=213.4

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++.++...|.+++|..+|++...               ...+.+.++   ...+++++|.++.++..       +..+
T Consensus      1053 ~eIA~Iai~lglyEEAf~IYkKa~~---------------~~~A~~VLi---e~i~nldrAiE~Aervn-------~p~v 1107 (1630)
T 1xi4_A         1053 PDIANIAISNELFEEAFAIFRKFDV---------------NTSAVQVLI---EHIGNLDRAYEFAERCN-------EPAV 1107 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCC---------------HHHHHHHHH---HHHhhHHHHHHHHHhcC-------CHHH
Confidence            4568889999999999999999821               222233332   37789999999988652       3678


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      |..+..++...|++++|+..|.+.      .+...|..++.++.+.|++++|.+.+....+.. ++....+.++.+|++.
T Consensus      1108 WsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~-~e~~Idt~LafaYAKl 1180 (1630)
T 1xi4_A         1108 WSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA-RESYVETELIFALAKT 1180 (1630)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc-ccccccHHHHHHHHhh
Confidence            899999999999999999999663      567788899999999999999999999887655 3333444599999999


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGV  245 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  245 (344)
                      +++++.....    +   .++...|..+...|...|++++|..+|..+          ..|..+..++.+.|++++|.+.
T Consensus      1181 ~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----------~ny~rLA~tLvkLge~q~AIEa 1243 (1630)
T 1xi4_A         1181 NRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVDG 1243 (1630)
T ss_pred             cCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh----------hHHHHHHHHHHHhCCHHHHHHH
Confidence            9888644332    2   345566777899999999999999999884          3789999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCC
Q 038490          246 KEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCK  325 (344)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  325 (344)
                      +++..      +..+|..+..+|...|++..|......+.     .+...+..++..|.+.|.+++|+.+++...... +
T Consensus      1244 arKA~------n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-r 1311 (1630)
T 1xi4_A         1244 ARKAN------STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-R 1311 (1630)
T ss_pred             HHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-h
Confidence            98772      67889888999999998888877665432     356677788899999999999999998877543 2


Q ss_pred             CChhhHHHHHHHHhh
Q 038490          326 ANPISYNVILGGLCK  340 (344)
Q Consensus       326 p~~~~~~~ll~~~~~  340 (344)
                      -....|+-|...|++
T Consensus      1312 aH~gmftELaiLyaK 1326 (1630)
T 1xi4_A         1312 AHMGMFTELAILYSK 1326 (1630)
T ss_pred             hHhHHHHHHHHHHHh
Confidence            244456555555554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.68  E-value=6.1e-15  Score=127.13  Aligned_cols=217  Identities=10%  Similarity=-0.034  Sum_probs=187.7

Q ss_pred             ccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHH
Q 038490           97 RLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKL-DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVF  175 (344)
Q Consensus        97 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  175 (344)
                      +.++++++.++...... +.+...+..+..++...|++ ++|...|++..+..+.+..+|..+..+|.+.|++++|.+.|
T Consensus        82 ~~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            34677778888776654 56788999999999999999 99999999999888888899999999999999999999999


Q ss_pred             HHHhhCCCCcCHhhHHHHHHHHHhh---------chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc--------CC
Q 038490          176 DEMVKRRLQPTLVTFGTLIYGLCLE---------LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV--------GE  238 (344)
Q Consensus       176 ~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~  238 (344)
                      ++..+..  |+...+..+...+...         |++++|+..++++++..  +.+...+..+..++...        |+
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccch
Confidence            9999874  6678888888899999         99999999999988764  55688899999999988        99


Q ss_pred             hHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHH
Q 038490          239 LSLALGVKEEMVRDKIE--MDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTIL  316 (344)
Q Consensus       239 ~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  316 (344)
                      +++|...|++..+..+.  -+...|..+..+|...|++++|...|++..+.... +...+..+..++...|++++|.+.+
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999987541  38899999999999999999999999999887543 6677888888999999999998765


Q ss_pred             HHH
Q 038490          317 DEM  319 (344)
Q Consensus       317 ~~~  319 (344)
                      .++
T Consensus       316 ~~~  318 (474)
T 4abn_A          316 GKT  318 (474)
T ss_dssp             TTC
T ss_pred             ccc
Confidence            544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.67  E-value=5.6e-16  Score=131.06  Aligned_cols=295  Identities=11%  Similarity=-0.037  Sum_probs=219.2

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcc--hhhHHHHHHHHHhcCCchHHHHHHHHhhhc---CCCC
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYN--LLHYDLIITKLGRAKMFDEMQQILHQLKHD---TRIV   80 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~   80 (344)
                      ...+..+...|++++|+..|+++....+         ..+.  ..+|..+...+...|++++|...+++....   .+..
T Consensus        13 ~~~g~~~~~~g~~~~A~~~~~~al~~~~---------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~   83 (406)
T 3sf4_A           13 ALEGERLCKSGDCRAGVSFFEAAVQVGT---------EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ   83 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC---------SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCc---------ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccc
Confidence            4678889999999999999999754321         1111  467889999999999999999999986543   1111


Q ss_pred             C-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHHhcCC--------------------h
Q 038490           81 P-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNV-QMT----VKFFNTLLNPKLTCGK--------------------L  134 (344)
Q Consensus        81 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~  134 (344)
                      | ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +
T Consensus        84 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~  163 (406)
T 3sf4_A           84 LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDAL  163 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHH
Confidence            2 245677888999999999999999998875320 011    4478888899999999                    9


Q ss_pred             HHHHHHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCC-cCHhhHHHHHHHHHhhchH
Q 038490          135 DRMKELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQ-PTLVTFGTLIYGLCLELRV  203 (344)
Q Consensus       135 ~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~  203 (344)
                      ++|...+++......      ....++..+...|...|++++|...+++..+.    +.. ....++..+...+...|++
T Consensus       164 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  243 (406)
T 3sf4_A          164 QAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            999999887654311      22456788889999999999999999998653    111 1123677888899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-----CHHHHHHHHHHHHHcCCc
Q 038490          204 DEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM-----DAGIYSSLISALFKAGRK  274 (344)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~  274 (344)
                      ++|...+++.++...-..+    ..++..+...+...|++++|...+++..+.....     ...++..+...|...|++
T Consensus       244 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  323 (406)
T 3sf4_A          244 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNH  323 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            9999999987754322222    5578888999999999999999999987642111     156788899999999999


Q ss_pred             CcHHHHHHHHHHc----CCCC-ChhhHHHHHHHHhccCCH
Q 038490          275 NEFPAILKEMKER----GCKP-NSVTYNALISGFCKEEDF  309 (344)
Q Consensus       275 ~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~  309 (344)
                      ++|...+++..+.    +..+ ...++..+...+...|+.
T Consensus       324 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          324 DQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            9999999987654    2111 234566667777766654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.67  E-value=6.2e-16  Score=131.19  Aligned_cols=273  Identities=11%  Similarity=-0.046  Sum_probs=209.0

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcc--hhhHHHHHHHHHhcCCchHHHHHHHHhhhcC---C-C
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYN--LLHYDLIITKLGRAKMFDEMQQILHQLKHDT---R-I   79 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~   79 (344)
                      ..++..+...|++++|+..|+++....+         ..+.  ..+|..+...+...|++++|...+++.....   + .
T Consensus        52 ~~~g~~~~~~g~~~~A~~~~~~al~~~~---------~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~  122 (411)
T 4a1s_A           52 ALEGERLCNAGDCRAGVAFFQAAIQAGT---------EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDR  122 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC---------SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHhcc---------cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCc
Confidence            4567788899999999999999754321         1111  2578899999999999999999999876531   1 1


Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc----C-CCCCHHHHHHHHHHHHhcCC-----------------hHHH
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSF----N-VQMTVKFFNTLLNPKLTCGK-----------------LDRM  137 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a  137 (344)
                      +....++..+...|...|++++|...+++..+.    + .+....++..+...+...|+                 +++|
T Consensus       123 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A  202 (411)
T 4a1s_A          123 LGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRA  202 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHH
Confidence            223467788899999999999999999988754    1 12234578888999999999                 9999


Q ss_pred             HHHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCC-cC----HhhHHHHHHHHHhhchHHHH
Q 038490          138 KELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQ-PT----LVTFGTLIYGLCLELRVDEA  206 (344)
Q Consensus       138 ~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a  206 (344)
                      ...+++......      ....++..+...|...|++++|...+++..+.... .+    ...+..+...+...|++++|
T Consensus       203 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  282 (411)
T 4a1s_A          203 VEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDA  282 (411)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHH
Confidence            999887654321      22347788889999999999999999998754111 11    23677788899999999999


Q ss_pred             HHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHHHHcCCcCcH
Q 038490          207 LKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKI-----EMDAGIYSSLISALFKAGRKNEF  277 (344)
Q Consensus       207 ~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~a  277 (344)
                      ...+++.++...-..+    ..++..+...+...|++++|...+++......     .....++..+...|...|++++|
T Consensus       283 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  362 (411)
T 4a1s_A          283 AEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERA  362 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHH
Confidence            9999987764321222    46788889999999999999999999876421     11245788899999999999999


Q ss_pred             HHHHHHHHHc
Q 038490          278 PAILKEMKER  287 (344)
Q Consensus       278 ~~~~~~~~~~  287 (344)
                      ...+++..+.
T Consensus       363 ~~~~~~al~~  372 (411)
T 4a1s_A          363 LKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998775

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=3.6e-13  Score=116.30  Aligned_cols=276  Identities=12%  Similarity=-0.018  Sum_probs=206.1

Q ss_pred             cchhhHHHHHHHHHhcCCchHHHHHHHHhhhc----CC---CCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcC----
Q 038490           45 YNLLHYDLIITKLGRAKMFDEMQQILHQLKHD----TR---IVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFN----  113 (344)
Q Consensus        45 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----  113 (344)
                      .....|+.+...+...|++++|++.|++..+.    .+   -+....+|..+..+|...|++++|...+++..+..    
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            35678999999999999999999999886532    01   12235678999999999999999999999886421    


Q ss_pred             ---CCCCHHHHHHHHHHHHhc--CChHHHHHHHHHHhccCCCCcccHHHHHHHH---HhhCChhHHHHHHHHHhhCCCCc
Q 038490          114 ---VQMTVKFFNTLLNPKLTC--GKLDRMKELFQIMEKYVSPDACSYNILIHGC---VVSRRLEDAWKVFDEMVKRRLQP  185 (344)
Q Consensus       114 ---~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~  185 (344)
                         -.....++..+..++...  +++++|...|++.....|.+...+..+..++   ...++.++|++.+++..+.+ +.
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence               112355666666555554  5799999999999988877777776666554   45577889999999888763 22


Q ss_pred             CHhhHHHHHHHHHh----hchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 038490          186 TLVTFGTLIYGLCL----ELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIY  261 (344)
Q Consensus       186 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  261 (344)
                      +...+..+...+..    .+++++|.+.+++.....  +.+...+..+...+...|++++|...+++..+..+. +..++
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~  284 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA--PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLH  284 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC--ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHH
Confidence            45555555444443    467889999999987753  556788999999999999999999999999987655 67777


Q ss_pred             HHHHHHHHHc-------------------CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          262 SSLISALFKA-------------------GRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       262 ~~l~~~~~~~-------------------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      ..+...|...                   +..++|...+++..+.... +...+..+...+...|++++|...|++..+.
T Consensus       285 ~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            7777666432                   2356777888888776533 6678888999999999999999999999886


Q ss_pred             CCC
Q 038490          323 GCK  325 (344)
Q Consensus       323 ~~~  325 (344)
                      ...
T Consensus       364 ~~~  366 (472)
T 4g1t_A          364 ELT  366 (472)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=1.5e-13  Score=120.49  Aligned_cols=317  Identities=11%  Similarity=0.028  Sum_probs=202.9

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      .++. +.+.|++++|..+|+++..           .+|.+...|...+..+.+.|++++|..+|++....   .|+...|
T Consensus        18 ~l~~-~~~~~~~~~a~~~~e~al~-----------~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~---~p~~~lw   82 (530)
T 2ooe_A           18 ILIR-EAQNQPIDKARKTYERLVA-----------QFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK---VLHIDLW   82 (530)
T ss_dssp             HHHH-HHHSSCHHHHHHHHHHHHT-----------TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT---CCCHHHH
T ss_pred             HHHH-HHHhCCHHHHHHHHHHHHH-----------HCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCChHHH
Confidence            4455 3568999999999999843           34558889999999999999999999999999874   3677666


Q ss_pred             HHHHHHH-HhcccHHHHHH----HHHHHHhc-CCC-CCHHHHHHHHHHHHh---------cCChHHHHHHHHHHhccCCC
Q 038490           87 CNVIGFY-GRARLLERALQ----MFDEMSSF-NVQ-MTVKFFNTLLNPKLT---------CGKLDRMKELFQIMEKYVSP  150 (344)
Q Consensus        87 ~~l~~~~-~~~~~~~~a~~----~~~~~~~~-~~~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~  150 (344)
                      ...+... ...|+.+.|.+    +|+..... |.. .+...|...+.....         .|+++.|..+|++.......
T Consensus        83 ~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~  162 (530)
T 2ooe_A           83 KCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMI  162 (530)
T ss_dssp             HHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCT
T ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhh
Confidence            6665432 23455544443    66555432 332 345566666665443         56677777777776652111


Q ss_pred             C-cccHHHHHHHH-------------HhhCChh-----------------------------------------------
Q 038490          151 D-ACSYNILIHGC-------------VVSRRLE-----------------------------------------------  169 (344)
Q Consensus       151 ~-~~~~~~l~~~~-------------~~~~~~~-----------------------------------------------  169 (344)
                      + ...|.......             .+.+++.                                               
T Consensus       163 ~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~  242 (530)
T 2ooe_A          163 NIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKS  242 (530)
T ss_dssp             THHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHc
Confidence            1 11222111100             0111222                                               


Q ss_pred             -------------HHHHHHHHHhhCCCCcCHhhHHHHHHHHHh-------hchHH-------HHHHHHHHHHHhcCCCCC
Q 038490          170 -------------DAWKVFDEMVKRRLQPTLVTFGTLIYGLCL-------ELRVD-------EALKLKEDIMRVYNVKPD  222 (344)
Q Consensus       170 -------------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~  222 (344)
                                   ++..+|++.... .+-+...|......+.+       .|+++       +|..++++.++. -.+.+
T Consensus       243 ~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~  320 (530)
T 2ooe_A          243 NPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKN  320 (530)
T ss_dssp             CSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCSSC
T ss_pred             CCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCccc
Confidence                         334445544443 12244455555555544       57765       788888887642 12345


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHH
Q 038490          223 GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDA-GIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALIS  301 (344)
Q Consensus       223 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  301 (344)
                      ...|..++..+.+.|++++|..+|+++.+..+. +. ..|..++..+.+.|+.++|..+|++..+... .+...|.....
T Consensus       321 ~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~  398 (530)
T 2ooe_A          321 MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAAL  398 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHH
Confidence            778888888888899999999999998886432 33 5788888888888889999999998887522 12333332222


Q ss_pred             H-HhccCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHhhcCC
Q 038490          302 G-FCKEEDFEAAFTILDEMGDKGCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       302 ~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      . +...|+.++|..+|++..+.. +-+...|..++..+.+.|+
T Consensus       399 ~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~  440 (530)
T 2ooe_A          399 MEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNE  440 (530)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTC
T ss_pred             HHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCC
Confidence            2 335889999999999888752 2357788888888877775

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.65  E-value=1.4e-15  Score=125.14  Aligned_cols=276  Identities=11%  Similarity=-0.022  Sum_probs=207.1

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcC---CCC-
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDT---RIV-   80 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~-   80 (344)
                      ....+..+...|++++|+..|+++....+.       .......++..+...+...|++++|.+.+++.....   +.. 
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   80 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTE-------DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   80 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcc-------cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccH
Confidence            345678888999999999999997543210       000014678899999999999999999999865431   111 


Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHHhcCC--------------------hH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNV-QMT----VKFFNTLLNPKLTCGK--------------------LD  135 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~  135 (344)
                      ....++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    ++
T Consensus        81 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (338)
T 3ro2_A           81 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQ  160 (338)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHH
Confidence            2245677888999999999999999998875320 112    3478888899999999                    99


Q ss_pred             HHHHHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC----C-CcCHhhHHHHHHHHHhhchHH
Q 038490          136 RMKELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR----L-QPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       136 ~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      +|...+++......      ....++..+...+...|++++|...+++..+..    . .....++..+...+...|+++
T Consensus       161 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  240 (338)
T 3ro2_A          161 AAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  240 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHH
Confidence            99999887654311      224467888899999999999999999876531    1 111236777888899999999


Q ss_pred             HHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHHcCCcC
Q 038490          205 EALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKIE-----MDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~  275 (344)
                      +|...+++.++...-..+    ..++..+...+...|++++|...+++..+....     ....++..+...|...|+++
T Consensus       241 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  320 (338)
T 3ro2_A          241 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHD  320 (338)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999999987754322222    557788889999999999999999988754211     12457788999999999999


Q ss_pred             cHHHHHHHHHHc
Q 038490          276 EFPAILKEMKER  287 (344)
Q Consensus       276 ~a~~~~~~~~~~  287 (344)
                      +|...+++..+.
T Consensus       321 ~A~~~~~~a~~~  332 (338)
T 3ro2_A          321 QAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            999999998775

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=3.7e-15  Score=121.28  Aligned_cols=245  Identities=13%  Similarity=0.069  Sum_probs=134.6

Q ss_pred             CCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcC------CCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc--
Q 038490           41 KPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDT------RIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF--  112 (344)
Q Consensus        41 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--  112 (344)
                      +..+.+..++..+...+...|++++|..+++++.+..      ..+....++..+...+...|++++|...+++..+.  
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  100 (311)
T 3nf1_A           21 YEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIRE  100 (311)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            4455667788888888888888888888888877620      01223456677778888888888888888877653  


Q ss_pred             ----C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccC--------CCCcccHHHHHHHHHhhCChhHHHHHHHHHh
Q 038490          113 ----N-VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV--------SPDACSYNILIHGCVVSRRLEDAWKVFDEMV  179 (344)
Q Consensus       113 ----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (344)
                          + .+....++..+...+...|++++|...+++.....        +....++..+...+...|++++|...++++.
T Consensus       101 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  180 (311)
T 3nf1_A          101 KTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRAL  180 (311)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                1 12234456666667777777777777766654431        1123334445555555555555555555544


Q ss_pred             hC------CCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 038490          180 KR------RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK  253 (344)
Q Consensus       180 ~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  253 (344)
                      +.      +..|                                   ....++..+..++...|++++|...++++.+..
T Consensus       181 ~~~~~~~~~~~~-----------------------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  225 (311)
T 3nf1_A          181 EIYQTKLGPDDP-----------------------------------NVAKTKNNLASCYLKQGKFKQAETLYKEILTRA  225 (311)
T ss_dssp             HHHHHTSCTTCH-----------------------------------HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCH-----------------------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            32      1111                                   112234444444444455555444444444310


Q ss_pred             -------CCC-------CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          254 -------IEM-------DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       254 -------~~~-------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                             ..+       ....+..+...+...+.+.++...+....... +.+..++..+..+|.+.|++++|..++++.
T Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  304 (311)
T 3nf1_A          226 HEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAA  304 (311)
T ss_dssp             HHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                   000       11223333444555667777777777766542 225566777888888888888888888877


Q ss_pred             hh
Q 038490          320 GD  321 (344)
Q Consensus       320 ~~  321 (344)
                      .+
T Consensus       305 l~  306 (311)
T 3nf1_A          305 MR  306 (311)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=1.1e-13  Score=103.60  Aligned_cols=164  Identities=11%  Similarity=0.025  Sum_probs=70.6

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      .+|..+...+...|++++|++.|++.++.. |-+..++..+..++...|++++|...+.......+.+...+..+...+.
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHH
Confidence            344444444444444444444444444433 3334444444444444444444444444444433333344444444444


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      ..++++.+...+.+..... +.+...+..+...+.+.|++++|+..|++.++..  +.+..++..+..++.+.|++++|.
T Consensus        85 ~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK--PGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc--chhhhHHHHHHHHHHHCCCHHHHH
Confidence            4444444444444443331 1123333344444444444444444444444332  223344444444444444444444


Q ss_pred             HHHHHHHH
Q 038490          244 GVKEEMVR  251 (344)
Q Consensus       244 ~~~~~~~~  251 (344)
                      ..|++..+
T Consensus       162 ~~~~~al~  169 (184)
T 3vtx_A          162 KYFKKALE  169 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            44444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.63  E-value=9.3e-14  Score=104.02  Aligned_cols=167  Identities=15%  Similarity=0.056  Sum_probs=100.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHH
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYG  196 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (344)
                      +..+|..+...|...|++++|...|++..+..|.+..++..+..+|.+.|++++|...+........ .+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHHH
Confidence            4556666666666666666666666666666665666666666666666666666666666655422 234444455555


Q ss_pred             HHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCc
Q 038490          197 LCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                      +...++++.+...+.+..+..  +.+...+..+..++.+.|++++|++.|++..+..+. +..+|..+..+|.+.|++++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHH
Confidence            566666666666666655432  334555556666666666666666666666655433 55556666666666666666


Q ss_pred             HHHHHHHHHHc
Q 038490          277 FPAILKEMKER  287 (344)
Q Consensus       277 a~~~~~~~~~~  287 (344)
                      |+..|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            66666665553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.62  E-value=6.7e-15  Score=119.78  Aligned_cols=163  Identities=12%  Similarity=0.092  Sum_probs=125.0

Q ss_pred             CCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhc------CCCCCchhHHHHH
Q 038490           16 KDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHD------TRIVPKEIIFCNV   89 (344)
Q Consensus        16 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l   89 (344)
                      |++++|+..|+++......   ...+..+....++..+...+...|++++|...+++....      ...+....++..+
T Consensus        41 g~~~~A~~~~~~a~~~~~~---~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  117 (311)
T 3nf1_A           41 GRYEVAVPLCKQALEDLEK---TSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNL  117 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHH---HHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHH---HcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            6788999999887321100   000034456778899999999999999999999998764      1112335678889


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhc------CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc--------CCCCccc
Q 038490           90 IGFYGRARLLERALQMFDEMSSF------NV-QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY--------VSPDACS  154 (344)
Q Consensus        90 ~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~  154 (344)
                      ...+...|++++|...++++.+.      +- +....++..+...+...|++++|...+++....        .+....+
T Consensus       118 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  197 (311)
T 3nf1_A          118 AVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKT  197 (311)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHH
T ss_pred             HHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            99999999999999999999864      21 223567888999999999999999999988665        2234456


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          155 YNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      +..+...|...|++++|...++++.+.
T Consensus       198 ~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          198 KNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            788889999999999999999998764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.62  E-value=4.6e-14  Score=121.70  Aligned_cols=214  Identities=9%  Similarity=-0.096  Sum_probs=183.4

Q ss_pred             chHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490           63 FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLL-ERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELF  141 (344)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  141 (344)
                      ++++++.++.....  .+.+...+..+...+...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|...|
T Consensus        84 ~~~al~~l~~~~~~--~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVLGS--AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHTT--CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc--CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55566667665553  244678888999999999999 99999999999886 667899999999999999999999999


Q ss_pred             HHHhccCCCCcccHHHHHHHHHhh---------CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh--------chHH
Q 038490          142 QIMEKYVSPDACSYNILIHGCVVS---------RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE--------LRVD  204 (344)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  204 (344)
                      ++..+.. |+...+..+...+...         |++++|+..|++..+.. +-+...|..+..++...        |+++
T Consensus       161 ~~al~~~-p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          161 SGALTHC-KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHHTTC-CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHhhC-CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9998876 4468889999999999         99999999999998874 33677888888999988        9999


Q ss_pred             HHHHHHHHHHHhcCCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHH
Q 038490          205 EALKLKEDIMRVYNVK---PDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL  281 (344)
Q Consensus       205 ~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  281 (344)
                      +|+..|+++++..  +   .+...+..+..+|...|++++|...|++..+..+. +...+..+...+...|++++|+..+
T Consensus       239 ~A~~~~~~al~~~--p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          239 QALSAYAQAEKVD--RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHC--GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC--CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999988763  3   47889999999999999999999999999987655 7788899999999999988888766


Q ss_pred             HHH
Q 038490          282 KEM  284 (344)
Q Consensus       282 ~~~  284 (344)
                      .++
T Consensus       316 ~~~  318 (474)
T 4abn_A          316 GKT  318 (474)
T ss_dssp             TTC
T ss_pred             ccc
Confidence            543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.61  E-value=2.3e-14  Score=120.39  Aligned_cols=298  Identities=9%  Similarity=0.003  Sum_probs=209.0

Q ss_pred             hcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHH--HhcCCchHHH-----------HHHHHhhhcCC
Q 038490           12 PRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKL--GRAKMFDEMQ-----------QILHQLKHDTR   78 (344)
Q Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~-----------~~~~~~~~~~~   78 (344)
                      ..+.+++++|..+++++...-+      .....++...|..++..-  .-.+.++.+.           +.++.+...  
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~------~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~--   93 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELD------QMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKK--   93 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHH------TSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHH--
T ss_pred             HHHHcCHHHHHHHHHHHHHHHH------hhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhc--
Confidence            4568999999999998744321      011223444455444332  2234444444           667766543  


Q ss_pred             CCCchhHH------HHHHHHHHhcccHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHhcc
Q 038490           79 IVPKEIIF------CNVIGFYGRARLLERALQMFDEMSSF----NVQM-TVKFFNTLLNPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus        79 ~~~~~~~~------~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                       +.+...+      ......+...|++++|...|++..+.    +-++ ...++..+..+|...|+++.|...+++....
T Consensus        94 -~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~  172 (383)
T 3ulq_A           94 -QARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEI  172 (383)
T ss_dssp             -THHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CCCchhHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1121222      22566778899999999999999864    2111 3467889999999999999999999887654


Q ss_pred             CC--C-----CcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHH
Q 038490          148 VS--P-----DACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       148 ~~--~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                      ..  +     ...+++.+...|...|++++|...+++..+.    +..+ ...++..+...|...|++++|...+++.++
T Consensus       173 ~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  252 (383)
T 3ulq_A          173 YKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIA  252 (383)
T ss_dssp             HHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            32  1     2357888889999999999999999988753    1111 124677888899999999999999999876


Q ss_pred             hc---CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCC---cCcHHHHHHHH
Q 038490          216 VY---NV-KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDK----IEMDAGIYSSLISALFKAGR---KNEFPAILKEM  284 (344)
Q Consensus       216 ~~---~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~  284 (344)
                      ..   +. +....++..+..++.+.|++++|...+++..+..    -+.....+..+...+...|+   .++|+.++++.
T Consensus       253 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          253 VFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            21   22 3346778899999999999999999999987641    11123335667788888888   66777777665


Q ss_pred             HHcCCCC-ChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          285 KERGCKP-NSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       285 ~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                         +..| ....+..+...|...|++++|...+++..+
T Consensus       333 ---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          333 ---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             ---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               2223 334677788899999999999999999874

>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=99.60  E-value=4.1e-12  Score=117.67  Aligned_cols=236  Identities=11%  Similarity=0.079  Sum_probs=125.0

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      |...|..++.++.+.|++++|.+.|....+.   .+++...+.++.+|++.+++++.....    +   .++...|..+.
T Consensus      1133 D~say~eVa~~~~~lGkyEEAIeyL~mArk~---~~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iG 1202 (1630)
T 1xi4_A         1133 DPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG 1202 (1630)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---cccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHH
Confidence            3444444444444444444444444443332   122222223444444444444322111    1   23333444455


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      ..|...|++++|..+|...        ..|..+..++.+.|++++|.+.+++..      +..+|..+-.+|...|++..
T Consensus      1203 d~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev~~acve~~Ef~L 1268 (1630)
T 1xi4_A         1203 DRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRL 1268 (1630)
T ss_pred             HHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHH
Confidence            5555555555555555543        245555555555555555555555441      34455555555555555555


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--CCcCcHHHHHHH
Q 038490          206 ALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKA--GRKNEFPAILKE  283 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~a~~~~~~  283 (344)
                      |......      +..+...+..++..|.+.|.+++|+.+++...... +-....|+-+...|++.  ++..++.+.|..
T Consensus      1269 A~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~ 1341 (1630)
T 1xi4_A         1269 AQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS 1341 (1630)
T ss_pred             HHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5444322      23355566677788888888888888887777655 33566676676666664  233344444442


Q ss_pred             HHHcCCCC------ChhhHHHHHHHHhccCCHHHHHH
Q 038490          284 MKERGCKP------NSVTYNALISGFCKEEDFEAAFT  314 (344)
Q Consensus       284 ~~~~~~~p------~~~~~~~l~~~~~~~~~~~~a~~  314 (344)
                      -..  ++|      +...|..++..|.+.|+++.|..
T Consensus      1342 rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1342 RVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             hcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            221  221      45668888888888899888873

>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=99.56  E-value=4.7e-13  Score=100.00  Aligned_cols=166  Identities=13%  Similarity=0.001  Sum_probs=112.3

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...|..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            445666666777777777777777776653  23455666666777777777777777777776654 455666777777


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEA  206 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  206 (344)
                      .+...|++++|...++++....+.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777777766666666667777777777777777777777766653 23456666667777777777777


Q ss_pred             HHHHHHHHHh
Q 038490          207 LKLKEDIMRV  216 (344)
Q Consensus       207 ~~~~~~~~~~  216 (344)
                      ...++++++.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            7777776554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.55  E-value=5e-12  Score=105.73  Aligned_cols=271  Identities=11%  Similarity=0.003  Sum_probs=194.5

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-h----hHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CCC----H
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-E----IIFCNVIGFYGRARLLERALQMFDEMSSFNV-QMT----V  118 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~  118 (344)
                      .+......+...|++++|...+++.....  +++ .    ..+..+...+...|++++|.+.+++..+..- ..+    .
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   93 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYAL   93 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC--CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            44555667788999999999999987753  222 2    2456677888899999999999998875310 112    2


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCC----C----CcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCC--c--C
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS----P----DACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQ--P--T  186 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~  186 (344)
                      .++..+...+...|++++|...+++......    +    ....+..+...+...|++++|...+++.......  +  .
T Consensus        94 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  173 (373)
T 1hz4_A           94 WSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQ  173 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGG
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHH
Confidence            3456778889999999999999988755321    1    2235566788899999999999999998754221  1  2


Q ss_pred             HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-HHHHH----HHHHHHHhcCChHHHHHHHHHHHHCCCCC---CH
Q 038490          187 LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-GQVFA----SLIKGLCAVGELSLALGVKEEMVRDKIEM---DA  258 (344)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~  258 (344)
                      ...+..+...+...|++++|...+++.......... .....    ..+..+...|++++|...+++.......+   ..
T Consensus       174 ~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  253 (373)
T 1hz4_A          174 LQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  253 (373)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhH
Confidence            345667778889999999999999997754222211 22221    23345778999999999999887643321   13


Q ss_pred             HHHHHHHHHHHHcCCcCcHHHHHHHHHHc----CCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          259 GIYSSLISALFKAGRKNEFPAILKEMKER----GCKPNS-VTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       259 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      ..+..+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...+++...
T Consensus       254 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          254 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            35677888999999999999999987553    222222 2566677788999999999999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.55  E-value=1.5e-13  Score=117.81  Aligned_cols=293  Identities=11%  Similarity=-0.030  Sum_probs=172.3

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCc---hHHHHHHHHhhhcCCCCCc
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMF---DEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~   82 (344)
                      ..++..+.+.|++++|+++|+.....+             +..++..+...+...|+.   ++|..+|++..+.     +
T Consensus         7 ~~la~~~~~~g~~~~A~~~~~~aa~~g-------------~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~-----~   68 (452)
T 3e4b_A            7 QRLANEALKRGDTVTAQQNYQQLAELG-------------YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT-----S   68 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHT-------------CCTGGGTCC-------------------------------
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHCC-------------CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC-----C
Confidence            456777888888899988888864332             444555566666667777   7888888777642     4


Q ss_pred             hhHHHHHHHHHHhcc-----cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC------------------------
Q 038490           83 EIIFCNVIGFYGRAR-----LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK------------------------  133 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------------------  133 (344)
                      +..+..+...+...+     +.++|...|++..+.| .++  .+..|...|...+.                        
T Consensus        69 ~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g-~~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~  145 (452)
T 3e4b_A           69 PRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANG-EGN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGL  145 (452)
T ss_dssp             --CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTT-CSS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHH
T ss_pred             HHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCC-CHH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHH
Confidence            445555555444433     7788888888887766 222  33444444433322                        


Q ss_pred             ---------------hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC---ChhHHHHHHHHHhhCCCCcCHhhHHHHHH
Q 038490          134 ---------------LDRMKELFQIMEKYVSPDACSYNILIHGCVVSR---RLEDAWKVFDEMVKRRLQPTLVTFGTLIY  195 (344)
Q Consensus       134 ---------------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  195 (344)
                                     .+.+..+++....   .++.++..+...|.+.|   +.++|+..|++..+.|.. +...+..+..
T Consensus       146 ~Lg~~y~~~~~~~~~~~~a~~~~~~a~~---~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~  221 (452)
T 3e4b_A          146 AQVLLYRTQGTYDQHLDDVERICKAALN---TTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVAR  221 (452)
T ss_dssp             HHHHHHHHHTCGGGGHHHHHHHHHHHTT---TCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHH
T ss_pred             HHHHHHHcCCCcccCHHHHHHHHHHHHc---CCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHH
Confidence                           2222223333322   33447777778888888   888888888888887633 4444445555


Q ss_pred             HHHhh----chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-H--HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 038490          196 GLCLE----LRVDEALKLKEDIMRVYNVKPDGQVFASLIKG-L--CAVGELSLALGVKEEMVRDKIEMDAGIYSSLISAL  268 (344)
Q Consensus       196 ~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  268 (344)
                      .|...    +++++|+..|++..     +.+...+..+... +  ...+++++|...|++..+.|   +...+..|...|
T Consensus       222 ~y~~g~~~~~d~~~A~~~~~~aa-----~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y  293 (452)
T 3e4b_A          222 VLGDATLGTPDEKTAQALLEKIA-----PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLY  293 (452)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHG-----GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHhCCCCCCCCHHHHHHHHHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            66544    58888888888764     2344555566555 3  45788888888888888775   667777777777


Q ss_pred             HHcC-----CcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHh
Q 038490          269 FKAG-----RKNEFPAILKEMKERGCKPNSVTYNALISGFCK----EEDFEAAFTILDEMGDKGCKANPISYNVILGGLC  339 (344)
Q Consensus       269 ~~~g-----~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~  339 (344)
                      . .|     ++++|...|++.. .|   +...+..|...|..    ..+.++|..+|++..+.|.   ......|-..|.
T Consensus       294 ~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~  365 (452)
T 3e4b_A          294 Y-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFS  365 (452)
T ss_dssp             H-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHH
T ss_pred             H-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHH
Confidence            6 44     7888888888777 32   56667777766665    3488889999988887763   334444444443

>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=6.5e-13  Score=111.56  Aligned_cols=283  Identities=8%  Similarity=-0.018  Sum_probs=198.3

Q ss_pred             HHhcCCchHHHHHHHHhhhcC-CCCCch--hHHHHHHHH--HHhcccHHHHH-----------HHHHHHHhcCCCCCHHH
Q 038490           57 LGRAKMFDEMQQILHQLKHDT-RIVPKE--IIFCNVIGF--YGRARLLERAL-----------QMFDEMSSFNVQMTVKF  120 (344)
Q Consensus        57 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~~l~~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~~~~  120 (344)
                      +.+.+++++|..+++++.+.. .+..+.  ..|-.++..  ....+..+.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            467899999999999987642 122333  333444332  22234444455           6666665432  11111


Q ss_pred             ------HHHHHHHHHhcCChHHHHHHHHHHhccCC--C----CcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CC-
Q 038490          121 ------FNTLLNPKLTCGKLDRMKELFQIMEKYVS--P----DACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RL-  183 (344)
Q Consensus       121 ------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-  183 (344)
                            +......+...|++++|...+++......  +    ...++..+...|...|++++|...+++..+.    +. 
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                  22355677889999999999999876422  2    3467888999999999999999999998653    11 


Q ss_pred             -CcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CC
Q 038490          184 -QPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVR-----DK  253 (344)
Q Consensus       184 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~  253 (344)
                       .....++..+...|...|++++|...+++.++...-.++    ..++..+..+|...|++++|...+++..+     ..
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence             112356777888999999999999999998764322222    24788899999999999999999999887     33


Q ss_pred             CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC----CCCChhhHHHHHHHHhccCC---HHHHHHHHHHHhhCCCCC
Q 038490          254 IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG----CKPNSVTYNALISGFCKEED---FEAAFTILDEMGDKGCKA  326 (344)
Q Consensus       254 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p  326 (344)
                      .+....++..+...+...|++++|...+++..+..    -+.....+..+...+...|+   +++|+.++++.   +..|
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~  336 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYA  336 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHH
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHH
Confidence            13356788999999999999999999999876541    11122335667788889999   77777777766   2333


Q ss_pred             -ChhhHHHHHHHHhhcCCC
Q 038490          327 -NPISYNVILGGLCKDGKC  344 (344)
Q Consensus       327 -~~~~~~~ll~~~~~~g~~  344 (344)
                       ....+..+...|.+.|++
T Consensus       337 ~~~~~~~~la~~y~~~g~~  355 (383)
T 3ulq_A          337 DLEDFAIDVAKYYHERKNF  355 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHCCCH
Confidence             344677778888888763

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.54  E-value=2.2e-12  Score=96.26  Aligned_cols=164  Identities=14%  Similarity=0.054  Sum_probs=90.8

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++....+.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            344455556666666666666666665543 3455556666666666666666666666665554445555555555666


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLAL  243 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  243 (344)
                      ..|++++|.+.++++.... +.+...+..+...+...|++++|...++++++..  +.+...+..+...+...|++++|.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCHHHHH
Confidence            6666666666665555442 2234444445555555555555555555554432  233445555555555555555555


Q ss_pred             HHHHHHHH
Q 038490          244 GVKEEMVR  251 (344)
Q Consensus       244 ~~~~~~~~  251 (344)
                      ..++++.+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.52  E-value=2.7e-12  Score=109.95  Aligned_cols=285  Identities=11%  Similarity=-0.008  Sum_probs=188.9

Q ss_pred             CCchhhhhhhhcccCCc---hHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcC-----CchHHHHHHHHh
Q 038490            2 PTSSIRLACLPRLQKDP---KLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAK-----MFDEMQQILHQL   73 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~   73 (344)
                      |.....++.++...|++   ++|+..|++....              +..++..+...+...+     ++++|...|++.
T Consensus        35 ~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~--------------~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~A  100 (452)
T 3e4b_A           35 SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT--------------SPRAQARLGRLLAAKPGATEAEHHEAESLLKKA  100 (452)
T ss_dssp             CTGGGTCC------------------------------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC--------------CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHH
Confidence            45566788888888888   8999999887321              4556667777555554     678899999887


Q ss_pred             hhcCCCCCchhHHHHHHHHHHhc-----------------------------------c----cHHHHHHHHHHHHhcCC
Q 038490           74 KHDTRIVPKEIIFCNVIGFYGRA-----------------------------------R----LLERALQMFDEMSSFNV  114 (344)
Q Consensus        74 ~~~~~~~~~~~~~~~l~~~~~~~-----------------------------------~----~~~~a~~~~~~~~~~~~  114 (344)
                      ...+  .++  .+..|...|...                                   +    ..+.+..++.....   
T Consensus       101 a~~g--~~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~---  173 (452)
T 3e4b_A          101 FANG--EGN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALN---  173 (452)
T ss_dssp             HHTT--CSS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTT---
T ss_pred             HHCC--CHH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHc---
Confidence            7642  122  333344433332                                   2    23333333333332   


Q ss_pred             CCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh----CChhHHHHHHHHHhhCCCCcCH
Q 038490          115 QMTVKFFNTLLNPKLTCG---KLDRMKELFQIMEKYVSPDACSYNILIHGCVVS----RRLEDAWKVFDEMVKRRLQPTL  187 (344)
Q Consensus       115 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~  187 (344)
                       .++..+..|...|...|   +.++|...|++..+.++++...+..+...|...    +++++|..+|++.. .|   +.
T Consensus       174 -~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~  248 (452)
T 3e4b_A          174 -TTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YP  248 (452)
T ss_dssp             -TCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---ST
T ss_pred             -CCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CH
Confidence             22337788888899999   999999999999998888877778888888665    79999999999988 33   45


Q ss_pred             hhHHHHHHH-H--HhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHHHHCCCCCCHH
Q 038490          188 VTFGTLIYG-L--CLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG-----ELSLALGVKEEMVRDKIEMDAG  259 (344)
Q Consensus       188 ~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~  259 (344)
                      ..+..+... +  ...+++++|...|++..+.    .+...+..+...|. .|     ++++|...|++.. .   -++.
T Consensus       249 ~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~----g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~  319 (452)
T 3e4b_A          249 ASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA----DQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVA  319 (452)
T ss_dssp             HHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHH
T ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHH
Confidence            555556555 3  4689999999999998764    36777878887776 55     9999999999888 3   3777


Q ss_pred             HHHHHHHHHHH----cCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHhhCCC
Q 038490          260 IYSSLISALFK----AGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK----EEDFEAAFTILDEMGDKGC  324 (344)
Q Consensus       260 ~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  324 (344)
                      .+..|...|..    ..++++|...|++..+.|   +......|...|..    ..+.++|..+|+...+.|.
T Consensus       320 A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          320 ADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             HHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            88888887776    348889999999998876   44556667777764    5689999999999999874

>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=99.52  E-value=2e-12  Score=116.13  Aligned_cols=164  Identities=10%  Similarity=0.022  Sum_probs=84.9

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...++.+..++.+.|++++|++.|++.++.. +-+..++..+..+|.+.|++++|...|++..+..+.+..+|..+..+|
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l   87 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4555556666666666666666666665554 334555555555555556666665555555555544555555555555


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      .+.|++++|++.|++..+... -+...+..+..++.+.|++++|+..|+++++..  +.+...+..+..++...|++++|
T Consensus        88 ~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHhhhhhHHHhcccHHHH
Confidence            555555555555555544321 133444444444455555555555555444432  22344444444444444444444


Q ss_pred             HHHHHHHH
Q 038490          243 LGVKEEMV  250 (344)
Q Consensus       243 ~~~~~~~~  250 (344)
                      .+.++++.
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>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=99.51  E-value=1.9e-12  Score=116.21  Aligned_cols=169  Identities=8%  Similarity=-0.018  Sum_probs=151.3

Q ss_pred             CCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      .|.+..+|+.+..++.+.|++++|++.|++..+..  +-+..++..+..++.+.|++++|++.|++.++.+ +-+...|.
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~   81 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYS   81 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            45578899999999999999999999999998853  4457889999999999999999999999999886 66788999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR  202 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  202 (344)
                      .+..++...|++++|.+.|++..+..+.+..+|+.+..+|.+.|++++|++.|++..+... -+...+..+..++...|+
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhccc
Confidence            9999999999999999999999988888899999999999999999999999999988742 257788889999999999


Q ss_pred             HHHHHHHHHHHHH
Q 038490          203 VDEALKLKEDIMR  215 (344)
Q Consensus       203 ~~~a~~~~~~~~~  215 (344)
                      +++|.+.++++++
T Consensus       161 ~~~A~~~~~kal~  173 (723)
T 4gyw_A          161 WTDYDERMKKLVS  173 (723)
T ss_dssp             CTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988765

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.50  E-value=1.4e-11  Score=95.45  Aligned_cols=205  Identities=11%  Similarity=-0.091  Sum_probs=158.8

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC-CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV-PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTL  124 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  124 (344)
                      |+..|......+...|++++|+..|++..+..  + ++...+..+..++...|++++|++.|++..+.. +.+..++..+
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLT--NNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            56888999999999999999999999998863  4 677778889999999999999999999999876 5567889999


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCc-------ccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC---HhhHHHHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDA-------CSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT---LVTFGTLI  194 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  194 (344)
                      ..++...|++++|...+++.....+.+.       ..|..+...+...|++++|+..|++..+.  .|+   ...+..+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            9999999999999999999998877666       55888888899999999999999999876  444   45666666


Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLI  265 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  265 (344)
                      ..+...|+.     .++.+....  ..+...|....  ....+.+++|...+++..+..+. +..+...+.
T Consensus       161 ~~~~~~~~~-----~~~~a~~~~--~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l~  221 (228)
T 4i17_A          161 VLFYNNGAD-----VLRKATPLA--SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQD  221 (228)
T ss_dssp             HHHHHHHHH-----HHHHHGGGT--TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHH-----HHHHHHhcc--cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHHH
Confidence            666655543     333332221  22344444433  23456789999999999987544 555554443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.47  E-value=4.4e-12  Score=106.03  Aligned_cols=275  Identities=12%  Similarity=0.017  Sum_probs=192.4

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch---
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE---   83 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---   83 (344)
                      ..+..+...|++++|...+++.....+      .........+++.+...+...|++++|.+.+++......-.++.   
T Consensus        19 ~~a~~~~~~g~~~~A~~~~~~al~~~~------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   92 (373)
T 1hz4_A           19 LRAQVAINDGNPDEAERLAKLALEELP------PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYA   92 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCC------TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCC------CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            445677789999999999988543321      00000122356778888999999999999999876531111222   


Q ss_pred             -hHHHHHHHHHHhcccHHHHHHHHHHHHhc----CCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCC-----
Q 038490           84 -IIFCNVIGFYGRARLLERALQMFDEMSSF----NVQ--M-TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSP-----  150 (344)
Q Consensus        84 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  150 (344)
                       .++..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++.....+.     
T Consensus        93 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  172 (373)
T 1hz4_A           93 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ  172 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHH
Confidence             33566788889999999999999988753    211  2 2346677888999999999999999987654431     


Q ss_pred             CcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC--HhhHH----HHHHHHHhhchHHHHHHHHHHHHHhcCCC--CC
Q 038490          151 DACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT--LVTFG----TLIYGLCLELRVDEALKLKEDIMRVYNVK--PD  222 (344)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~  222 (344)
                      ...++..+...+...|++++|...+++.......++  .....    .....+...|++++|...+++........  ..
T Consensus       173 ~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  252 (373)
T 1hz4_A          173 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  252 (373)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhh
Confidence            124567788889999999999999999865311111  11111    22344678999999999998865422111  11


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          223 GQVFASLIKGLCAVGELSLALGVKEEMVRD----KIEMDA-GIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       223 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ...+..+...+...|++++|...++.....    +..++. ..+..+..++...|+.++|...+++....
T Consensus       253 ~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          253 QGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            335667788899999999999999988653    222222 36667788899999999999999987654

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.46  E-value=1.1e-11  Score=96.12  Aligned_cols=206  Identities=11%  Similarity=-0.089  Sum_probs=157.7

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      .++..+......+...|++++|+..|+...+...+++...+..+..++...|++++|...+++.....+.+...+..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            45678888899999999999999999999988733788888889999999999999999999999888778889999999


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCH-------hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC---HHHHHHHH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTL-------VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD---GQVFASLI  230 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~  230 (344)
                      +|...|++++|+..+++..+... .+.       ..|..+...+...|++++|+..++++++.   .|+   ...+..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~l~  160 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV---TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS---SCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc---CCCcccHHHHHHHH
Confidence            99999999999999999987632 234       44677777888999999999999997754   444   46677777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHH
Q 038490          231 KGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNAL  299 (344)
Q Consensus       231 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  299 (344)
                      .++...|     ...++.+...+.. +...|....  ....+.+++|...+++..+..+. +......+
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~~~-~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLASS-NKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQ  220 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGTTT-CHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcccC-CHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            7775543     4445555554322 444554443  33456689999999999987432 34444433

>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=99.46  E-value=4.8e-13  Score=107.07  Aligned_cols=235  Identities=12%  Similarity=0.022  Sum_probs=158.0

Q ss_pred             cccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhc------CCCCCchhHH
Q 038490           13 RLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHD------TRIVPKEIIF   86 (344)
Q Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~   86 (344)
                      ...|++++|+..|++........   .....+....++..+...+...|++++|...+++....      ...+....++
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKT---SGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATL   88 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHH---HCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHH
Confidence            34677777777777653311000   00112346778999999999999999999999998754      1112335678


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhc------C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc--------CCCC
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSF------N-VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY--------VSPD  151 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~  151 (344)
                      ..+...+...|++++|.+.+++..+.      . .+....++..+..++...|++++|...+++....        .+..
T Consensus        89 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  168 (283)
T 3edt_B           89 NNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNV  168 (283)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            88999999999999999999998864      1 1334668888999999999999999999988765        2234


Q ss_pred             cccHHHHHHHHHhhCChhHHHHHHHHHhhC-------CCCcCHh-hHHHHHHHHHhhc------hHHHHHHHHHHHHHhc
Q 038490          152 ACSYNILIHGCVVSRRLEDAWKVFDEMVKR-------RLQPTLV-TFGTLIYGLCLEL------RVDEALKLKEDIMRVY  217 (344)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-~~~~l~~~~~~~~------~~~~a~~~~~~~~~~~  217 (344)
                      ..++..+...|...|++++|...+++..+.       ...+... .+..+.......+      .+..+...++....  
T Consensus       169 ~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  246 (283)
T 3edt_B          169 AKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--  246 (283)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--
Confidence            567888999999999999999999998753       1122222 2222222222222      23333333322110  


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          218 NVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       218 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      ..+....++..+...|...|++++|...+++..+.
T Consensus       247 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          247 DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            11223567888999999999999999999988764

>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=99.45  E-value=2.5e-12  Score=102.83  Aligned_cols=237  Identities=10%  Similarity=0.030  Sum_probs=113.3

Q ss_pred             HhcCCchHHHHHHHHhhhcC------CCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc------CC-CCCHHHHHHH
Q 038490           58 GRAKMFDEMQQILHQLKHDT------RIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF------NV-QMTVKFFNTL  124 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  124 (344)
                      ...|++++|+..+++..+..      ..+....++..+...+...|++++|...+++..+.      +- +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            34566666666666654420      01123455666667777777777777777766543      11 1223455555


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      ..++...|++++|...+++.....                           ++......+....++..+...+...|+++
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~---------------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~  144 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIR---------------------------EKVLGKFHPDVAKQLNNLALLCQNQGKAE  144 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHH---------------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHH---------------------------HHHcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence            566666666666666655544321                           00000000112333444444555555555


Q ss_pred             HHHHHHHHHHHhc------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-------CCCC-CHHHHHHHHHHHHH
Q 038490          205 EALKLKEDIMRVY------NVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD-------KIEM-DAGIYSSLISALFK  270 (344)
Q Consensus       205 ~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~-~~~~~~~l~~~~~~  270 (344)
                      +|...++++++..      ..+....++..+..++...|++++|...+++..+.       ...+ ....+..+...+..
T Consensus       145 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (283)
T 3edt_B          145 EVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREES  224 (283)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhc
Confidence            5555555544320      01112344555566666666666666666655542       1111 22223333333333


Q ss_pred             cCCcCcHHHHHHHHH--H-cC--CCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          271 AGRKNEFPAILKEMK--E-RG--CKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       271 ~g~~~~a~~~~~~~~--~-~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .+....+..+.....  + .+  .+....++..+...|...|++++|..++++..+
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          225 KDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             TCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333333322211111  0 11  111334677778888888888888888888765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=4.6e-11  Score=100.08  Aligned_cols=198  Identities=10%  Similarity=0.022  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCC--C-----CcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCC-cCH
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVS--P-----DACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQ-PTL  187 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~  187 (344)
                      ++..+..+|...|+++.|...+++......  +     ...+++.+..+|...|++++|.+.+++..+.    +.. ...
T Consensus       143 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  222 (378)
T 3q15_A          143 FHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIA  222 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            344444444444444444444444332211  0     1223444455555555555555555544331    111 112


Q ss_pred             hhHHHHHHHHHhhchHHHHHHHHHHHHHhc---CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCCHHH
Q 038490          188 VTFGTLIYGLCLELRVDEALKLKEDIMRVY---NVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI----EMDAGI  260 (344)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~  260 (344)
                      .++..+...+...|++++|...+++.++..   +.+....++..+...+.+.|++++|...+++..+...    +.....
T Consensus       223 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  302 (378)
T 3q15_A          223 ISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKEL  302 (378)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            234445555555555555555555544310   1122244555555556666666666666655554211    111223


Q ss_pred             HHHHHHHHHHcCC---cCcHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          261 YSSLISALFKAGR---KNEFPAILKEMKERGCKP-NSVTYNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       261 ~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      +..+...+...++   +.+|+..+++   .+..| ....+..+...|...|++++|...|++..
T Consensus       303 ~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          303 FLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3344444444454   4444444443   11111 12334455566666666666666666654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=5.4e-12  Score=105.72  Aligned_cols=238  Identities=11%  Similarity=-0.002  Sum_probs=162.3

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC----chhHHHHHHHHHHhcccHHHHHHHHHHHHhcC-----CCC
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP----KEIIFCNVIGFYGRARLLERALQMFDEMSSFN-----VQM  116 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~  116 (344)
                      ....|......+...|++++|+..|++..+.....+    ...++..+...|...|+++.|...+++..+..     ..+
T Consensus       100 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~  179 (378)
T 3q15_A          100 KYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSI  179 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHH
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchh
Confidence            445566677778888888888888887654322222    24567777888888888888888888776421     011


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhh-----CCCC
Q 038490          117 -TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVK-----RRLQ  184 (344)
Q Consensus       117 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~  184 (344)
                       ...+++.+..+|...|++++|...+++..+...      ....++..+..+|...|++++|...+++..+     .. +
T Consensus       180 ~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~  258 (378)
T 3q15_A          180 RTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-D  258 (378)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-G
T ss_pred             hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-h
Confidence             245677788888888888888888877654321      1234667778888888888888888888776     42 2


Q ss_pred             cCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCC-C
Q 038490          185 PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVK---PDGQVFASLIKGLCAVGE---LSLALGVKEEMVRDKIEM-D  257 (344)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~-~  257 (344)
                      ....++..+...+.+.|++++|...+++.++...-.   .....+..+...+...++   +.+|...++.   .+..+ .
T Consensus       259 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~  335 (378)
T 3q15_A          259 LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYI  335 (378)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHH
Confidence            235667777788888888888888888877653322   223445566666667777   6666666665   22222 2


Q ss_pred             HHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          258 AGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       258 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ...+..+...|...|++++|...|++..+.
T Consensus       336 ~~~~~~la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          336 EACARSAAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            345667888888889988888888877653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.42  E-value=1.5e-10  Score=91.91  Aligned_cols=239  Identities=10%  Similarity=0.038  Sum_probs=162.3

Q ss_pred             ccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHH
Q 038490           14 LQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFY   93 (344)
Q Consensus        14 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   93 (344)
                      -.|++..++.-...+.+..             +...-..+.+++...|++....          .-.|....+..+...+
T Consensus        25 y~G~yq~~i~e~~~~~~~~-------------~~~~~~~~~Rs~iAlg~~~~~~----------~~~~~~~a~~~la~~~   81 (310)
T 3mv2_B           25 YTGNFVQCLQEIEKFSKVT-------------DNTLLFYKAKTLLALGQYQSQD----------PTSKLGKVLDLYVQFL   81 (310)
T ss_dssp             TTTCHHHHTHHHHTSSCCC-------------CHHHHHHHHHHHHHTTCCCCCC----------SSSTTHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHhcCccc-------------hHHHHHHHHHHHHHcCCCccCC----------CCCHHHHHHHHHHHHh
Confidence            3578888887555553221             1233344667888888877421          1234443444444433


Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CCcccHHHHHHHHHhhCChhHH
Q 038490           94 GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PDACSYNILIHGCVVSRRLEDA  171 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  171 (344)
                       ..+    |+..|+++...+ +++..++..+..++...|++++|++++.+....++  .+...+..++..+.+.|+.+.|
T Consensus        82 -~~~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A  155 (310)
T 3mv2_B           82 -DTK----NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTA  155 (310)
T ss_dssp             -TTT----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             -ccc----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHH
Confidence             222    778888887765 56666667888889999999999999998866654  5667788888999999999999


Q ss_pred             HHHHHHHhhCCCCc-----CHhhHHHHHHHHH--hhc--hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH
Q 038490          172 WKVFDEMVKRRLQP-----TLVTFGTLIYGLC--LEL--RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       172 ~~~~~~~~~~~~~~-----~~~~~~~l~~~~~--~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      .+.+++|.+.  .|     +..+...+..++.  ..|  ++.+|..+|+++.+.   .|+..+...++.++.+.|++++|
T Consensus       156 ~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eA  230 (310)
T 3mv2_B          156 STIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEA  230 (310)
T ss_dssp             HHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHH
Confidence            9999998775  45     3555566665533  334  889999999997543   45533434444578899999999


Q ss_pred             HHHHHHHHHCC---------CCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          243 LGVKEEMVRDK---------IEMDAGIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       243 ~~~~~~~~~~~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      .+.++.+.+..         -+-++.++..+|......|+  +|.+++.++....
T Consensus       231 e~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          231 QGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            99998766531         02266777566666666676  8889999988863

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.41  E-value=2.5e-11  Score=97.77  Aligned_cols=235  Identities=11%  Similarity=0.047  Sum_probs=160.8

Q ss_pred             hHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh--cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 038490           64 DEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR--ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELF  141 (344)
Q Consensus        64 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  141 (344)
                      .+|.+++.+..+.  .+++...+ .+   +..  .+++++|...|+..               ...|...|++++|...|
T Consensus         2 ~~a~~~~~~a~k~--~~~~~~~~-~~---~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~   60 (292)
T 1qqe_A            2 SDPVELLKRAEKK--GVPSSGFM-KL---FSGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSF   60 (292)
T ss_dssp             CCHHHHHHHHHHH--SSCCCTHH-HH---HSCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHH
T ss_pred             CcHHHHHHHHHHH--hCcCCCcc-hh---cCCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHH
Confidence            4577777777765  33332223 22   222  22588888888776               33567788888888888


Q ss_pred             HHHhccC----CC--CcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCCc-CHhhHHHHHHHHHhh-chHHHHHHH
Q 038490          142 QIMEKYV----SP--DACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQP-TLVTFGTLIYGLCLE-LRVDEALKL  209 (344)
Q Consensus       142 ~~~~~~~----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~-~~~~~a~~~  209 (344)
                      ++.....    .+  ...+|+.+..+|.+.|++++|+..+++..+.    |... -..++..+...|... |++++|+..
T Consensus        61 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~  140 (292)
T 1qqe_A           61 LKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDC  140 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHH
Confidence            8765432    11  2457888888899999999999988887653    2111 134677788888886 999999999


Q ss_pred             HHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHHcCCcCcHHH
Q 038490          210 KEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDA------GIYSSLISALFKAGRKNEFPA  279 (344)
Q Consensus       210 ~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~  279 (344)
                      |++.++...-..+    ..++..+...+.+.|++++|...+++..+..+....      ..|..+..++...|++++|..
T Consensus       141 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  220 (292)
T 1qqe_A          141 YELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAAR  220 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9988764321111    356788889999999999999999999986544222      156777888899999999999


Q ss_pred             HHHHHHHcCCCCCh------hhHHHHHHHHh--ccCCHHHHHHHHHHHhh
Q 038490          280 ILKEMKERGCKPNS------VTYNALISGFC--KEEDFEAAFTILDEMGD  321 (344)
Q Consensus       280 ~~~~~~~~~~~p~~------~~~~~l~~~~~--~~~~~~~a~~~~~~~~~  321 (344)
                      .|++..+.  .|+.      ..+..++.++.  ..+++++|+..|+++..
T Consensus       221 ~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          221 TLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            99988764  2321      12344555554  45678888888877654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.38  E-value=1e-10  Score=92.62  Aligned_cols=171  Identities=7%  Similarity=-0.074  Sum_probs=116.2

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc---hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC--CCCH
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK---EIIFCNVIGFYGRARLLERALQMFDEMSSFNV--QMTV  118 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~  118 (344)
                      +.+...+......+.+.|++++|+..|+++....  +.+   ...+..+..++.+.|++++|+..|+...+...  +...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            3467788888999999999999999999998853  223   56788888999999999999999999998641  1224


Q ss_pred             HHHHHHHHHHHh--------cCChHHHHHHHHHHhccCCCCcccHH-----------------HHHHHHHhhCChhHHHH
Q 038490          119 KFFNTLLNPKLT--------CGKLDRMKELFQIMEKYVSPDACSYN-----------------ILIHGCVVSRRLEDAWK  173 (344)
Q Consensus       119 ~~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~l~~~~~~~~~~~~a~~  173 (344)
                      ..+..+..++..        .|++++|...|+++....+.+.....                 .+...|.+.|++++|+.
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            567778888888        89999999999999887765555543                 33445555555555555


Q ss_pred             HHHHHhhCCCCc--CHhhHHHHHHHHHhh----------chHHHHHHHHHHHHHh
Q 038490          174 VFDEMVKRRLQP--TLVTFGTLIYGLCLE----------LRVDEALKLKEDIMRV  216 (344)
Q Consensus       174 ~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~  216 (344)
                      .|+++.+.....  ....+..+..++...          |++++|...++++++.
T Consensus       170 ~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          170 TYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            555554432110  122333344444433          5555555555555443

>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=99.37  E-value=4.1e-12  Score=91.47  Aligned_cols=147  Identities=10%  Similarity=0.034  Sum_probs=100.6

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      .|+.++...|++++|+..|+...+.           .+.+...+..+...|.+.|++++|++.|++..+..  +-+..+|
T Consensus         2 ~LG~~~~~~~~~e~ai~~~~~a~~~-----------~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~--p~~~~a~   68 (150)
T 4ga2_A            2 PLGSMRRSKADVERYIASVQGSTPS-----------PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ--ERDPKAH   68 (150)
T ss_dssp             -----CCCHHHHHHHHHHHHHHSCS-----------HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             HhHHHHHHcChHHHHHHHHHHhccc-----------CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHH
Confidence            3567777778888888888776332           23355566677788888888888888888877652  4456777


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH-HHHHhccCCCCcccHHHHHHHHHhh
Q 038490           87 CNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKEL-FQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        87 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      ..+..++...|++++|+..|+...+.+ +-+..++..+..++.+.|++++|... +++..+..|.+..+|......+...
T Consensus        69 ~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~  147 (150)
T 4ga2_A           69 RFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCE  147 (150)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh
Confidence            777788888888888888888877765 55677777777777777777665544 4667666666666777666666655


Q ss_pred             CC
Q 038490          166 RR  167 (344)
Q Consensus       166 ~~  167 (344)
                      |+
T Consensus       148 G~  149 (150)
T 4ga2_A          148 GE  149 (150)
T ss_dssp             CC
T ss_pred             Cc
Confidence            53

>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=99.36  E-value=7e-11  Score=82.98  Aligned_cols=130  Identities=11%  Similarity=0.101  Sum_probs=83.8

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK  128 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  128 (344)
                      +|..+...+...|++++|..+++++.+..  +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC--CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            45566666777777777777777766542  3345566666666667777777777777766654 44555666666666


Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...|++++|...++.+....+.+...+..+...+.+.|++++|...++++...
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            66677777777666666555555556666666666666666666666665543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.33  E-value=2e-10  Score=90.86  Aligned_cols=184  Identities=8%  Similarity=-0.057  Sum_probs=110.1

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCC---cccH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT---VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPD---ACSY  155 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~  155 (344)
                      +...+..+...+.+.|++++|+..|+.+.+.. +.+   ...+..+..++...|++++|...|+++....+.+   ..++
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            45556666667777777777777777777654 333   5566777777777777777777777776654422   3345


Q ss_pred             HHHHHHHHh--------hCChhHHHHHHHHHhhCCCCcCH-hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHH
Q 038490          156 NILIHGCVV--------SRRLEDAWKVFDEMVKRRLQPTL-VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVF  226 (344)
Q Consensus       156 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (344)
                      ..+..++..        .|++++|...|+++.+..  |+. .....+.......+.       +            ...+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~-------~------------~~~~  151 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAK-------L------------ARKQ  151 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHH-------H------------HHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHH-------H------------HHHH
Confidence            556666666        677777777777766542  221 111111000000000       0            0113


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHc----------CCcCcHHHHHHHHHHc
Q 038490          227 ASLIKGLCAVGELSLALGVKEEMVRDKIEM--DAGIYSSLISALFKA----------GRKNEFPAILKEMKER  287 (344)
Q Consensus       227 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~  287 (344)
                      ..+..+|.+.|++++|...|+++.+..+..  ....+..+..+|...          |++++|...|+++.+.
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            455667777888888888888877654321  234566666777655          6677777777777765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.33  E-value=1.6e-10  Score=88.09  Aligned_cols=162  Identities=7%  Similarity=-0.007  Sum_probs=87.5

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-hhHHHH----------------HHHHHHhcccHHHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-EIIFCN----------------VIGFYGRARLLERALQMFDEM  109 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~  109 (344)
                      ...+......+.+.|++++|+..|++..+.   .|+ ...+..                +..++.+.|++++|+..|++.
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   80 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIAL---NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKEL   80 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            444555666778888899999888888774   243 344444                555556666666666666666


Q ss_pred             HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC--hhHHHHHHHHHhhCCCCcCH
Q 038490          110 SSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR--LEDAWKVFDEMVKRRLQPTL  187 (344)
Q Consensus       110 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~  187 (344)
                      .+.. +.+...+..+..++...|++++|...|++..+..|.+..++..+...|...|+  ...+...+.....  ..|..
T Consensus        81 l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  157 (208)
T 3urz_A           81 LQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQ  157 (208)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHH
T ss_pred             HHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchh
Confidence            5554 44555566666666666666666666666655555555555555555544332  2233333333321  11111


Q ss_pred             hhHHHHHHHHHhhchHHHHHHHHHHHH
Q 038490          188 VTFGTLIYGLCLELRVDEALKLKEDIM  214 (344)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (344)
                      ..+.....++...|++++|+..|++++
T Consensus       158 ~a~~~~g~~~~~~~~~~~A~~~~~~al  184 (208)
T 3urz_A          158 YARYRDGLSKLFTTRYEKARNSLQKVI  184 (208)
T ss_dssp             HHHHHHHHHHHHHHTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            222222333444555555555555544

>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=99.30  E-value=3e-10  Score=79.67  Aligned_cols=127  Identities=13%  Similarity=0.142  Sum_probs=67.6

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..+...+...|++++|..+++.+.+.+ +.+...+..+...+...|++++|...++++....+.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            4445555566666666666666665544 334555555555555566666666666555554444444555555555555


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIM  214 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (344)
                      |++++|.+.++++.+.. +.+...+..+...+...|++++|...+++++
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            55555555555554432 1233344444445555555555555555443

>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=99.29  E-value=7.8e-11  Score=87.31  Aligned_cols=156  Identities=10%  Similarity=-0.017  Sum_probs=65.5

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHH
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIF   86 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (344)
                      ..+..+...|++++|+..|+.+...           .|.+...+..+..++.+.|++++|+..+++.....   |+...+
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~-----------~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~---p~~~~~   76 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDE-----------LQSRGDVKLAKADCLLETKQFELAQELLATIPLEY---QDNSYK   76 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHH-----------HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG---CCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH-----------CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc---CChHHH
Confidence            3444445555555555555554221           22244445555555555555555555555544321   222211


Q ss_pred             HHHHHH-HHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCC--CcccHHHHHHHHH
Q 038490           87 CNVIGF-YGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSP--DACSYNILIHGCV  163 (344)
Q Consensus        87 ~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~  163 (344)
                      ..+... +...+....|...+++..+.. +.+...+..+..++...|++++|...|+++.+..+.  +...+..+...+.
T Consensus        77 ~~~~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~  155 (176)
T 2r5s_A           77 SLIAKLELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILS  155 (176)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHH
Confidence            111111 111111122344444444433 333444444444444455555555554444443331  1234444444444


Q ss_pred             hhCChhHHHHHHHH
Q 038490          164 VSRRLEDAWKVFDE  177 (344)
Q Consensus       164 ~~~~~~~a~~~~~~  177 (344)
                      ..|+.++|...|++
T Consensus       156 ~~g~~~~A~~~y~~  169 (176)
T 2r5s_A          156 ALGQGNAIASKYRR  169 (176)
T ss_dssp             HHCSSCHHHHHHHH
T ss_pred             HhCCCCcHHHHHHH
Confidence            44444444444443

>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=99.29  E-value=2.4e-08  Score=88.86  Aligned_cols=324  Identities=9%  Similarity=0.007  Sum_probs=199.0

Q ss_pred             hhhhcccCC---chHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCc--------hHHHHHHHHhhhcC
Q 038490            9 ACLPRLQKD---PKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMF--------DEMQQILHQLKHDT   77 (344)
Q Consensus         9 ~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~~~   77 (344)
                      +..-.+.|+   ++.+..+|++....-         +.+|++..|...+....+.++.        +.+.++|+.....-
T Consensus       107 i~~E~~~~~~~~~~~v~~lfeRal~~~---------~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~v  177 (679)
T 4e6h_A          107 LSLEFDKMEELDAAVIEPVLARCLSKE---------LGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKC  177 (679)
T ss_dssp             HHHHHTC--CCCHHHHHHHHHHHTCSS---------SCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhCCcchHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHh
Confidence            344445666   999999999974332         0136888999888877776654        33557888877655


Q ss_pred             CC-CCc-hhHHHHHHHHHH---------hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh-------------cCC
Q 038490           78 RI-VPK-EIIFCNVIGFYG---------RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT-------------CGK  133 (344)
Q Consensus        78 ~~-~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~  133 (344)
                      |. .++ ...|...+....         ..++++.+.++|+..+......-..+|......-..             ..+
T Consensus       178 G~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~  257 (679)
T 4e6h_A          178 AIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQ  257 (679)
T ss_dssp             TTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHH
T ss_pred             CcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHH
Confidence            65 454 466766665533         345677888888888753211112222211110000             001


Q ss_pred             hHH-------------------------------------------------------------------HHHHHHHHhc
Q 038490          134 LDR-------------------------------------------------------------------MKELFQIMEK  146 (344)
Q Consensus       134 ~~~-------------------------------------------------------------------a~~~~~~~~~  146 (344)
                      ++.                                                                   +..+|++...
T Consensus       258 y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~  337 (679)
T 4e6h_A          258 YMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQ  337 (679)
T ss_dssp             HHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHH
Confidence            111                                                                   2233333333


Q ss_pred             cCCCCcccHHHHHHHHHhhCChhHHH-HHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC-------
Q 038490          147 YVSPDACSYNILIHGCVVSRRLEDAW-KVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYN-------  218 (344)
Q Consensus       147 ~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------  218 (344)
                      ..+.....|...+..+...|+.++|. ++|++.... ++.+...+...+....+.|+++.|..+|+.++....       
T Consensus       338 ~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~  416 (679)
T 4e6h_A          338 HVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALM  416 (679)
T ss_dssp             HTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhh
Confidence            33334444555555566778888886 899888764 344555566677777788999999999998775310       


Q ss_pred             -CCCC------------HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCcCcHHHHHHHH
Q 038490          219 -VKPD------------GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKA-GRKNEFPAILKEM  284 (344)
Q Consensus       219 -~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~  284 (344)
                       -.|+            ..+|...+....+.|+.+.|..+|....+.........|...+..-.+. ++.+.|..+|+..
T Consensus       417 ~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~  496 (679)
T 4e6h_A          417 EDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELG  496 (679)
T ss_dssp             HHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHH
T ss_pred             hccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence             0131            3367777777778889999999999998762122344444333333343 4588999999988


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCC--ChhhHHHHHHHHhhcCC
Q 038490          285 KERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKA--NPISYNVILGGLCKDGK  343 (344)
Q Consensus       285 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~ll~~~~~~g~  343 (344)
                      .+. .+-+...+...+......|+.+.|..+|++.......+  ....|...++-=.+.|+
T Consensus       497 Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~  556 (679)
T 4e6h_A          497 LKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGS  556 (679)
T ss_dssp             HHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCC
T ss_pred             HHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Confidence            876 23355666778887788899999999999988753211  23456666665555554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.28  E-value=2.3e-10  Score=92.12  Aligned_cols=62  Identities=5%  Similarity=-0.076  Sum_probs=30.4

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcC---CCCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDT---RIVPK-EIIFCNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      |...+..|...|++++|.+.|++.....   |-+++ ..+|+.+..+|.+.|++++|+..|++..+
T Consensus        40 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~  105 (292)
T 1qqe_A           40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQ  105 (292)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3333445555566666666555543320   11111 23455555555555666666555555543

>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=99.28  E-value=7.9e-11  Score=106.07  Aligned_cols=180  Identities=11%  Similarity=-0.073  Sum_probs=138.9

Q ss_pred             cccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHH
Q 038490           13 RLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGF   92 (344)
Q Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~   92 (344)
                      ...|++++|++.|++.....-   .......+.+...|..+..++.+.|++++|++.|++..+..  +.+...+..+..+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~---~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~  476 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGAL---DADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV--GWRWRLVWYRAVA  476 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC----------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CCCHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcc---cccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--cchHHHHHHHHHH
Confidence            678899999999988741000   00002233477788889999999999999999999988752  4567788888899


Q ss_pred             HHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490           93 YGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus        93 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      +...|++++|++.|++..+.. +.+...+..+..++.+.|++++ ...|++..+..+.+...|..+..++.+.|++++|.
T Consensus       477 ~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          477 ELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999998876 5567888889999999999999 99999988888888888999999999999999999


Q ss_pred             HHHHHHhhCCCCcC-HhhHHHHHHHHHhhc
Q 038490          173 KVFDEMVKRRLQPT-LVTFGTLIYGLCLEL  201 (344)
Q Consensus       173 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  201 (344)
                      +.|++..+.+  |+ ...+..+..++...+
T Consensus       555 ~~~~~al~l~--P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          555 RTLDEVPPTS--RHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHHHTSCTTS--TTHHHHHHHHHHHTC---
T ss_pred             HHHHhhcccC--cccHHHHHHHHHHHHccC
Confidence            9999887663  33 455555665655433

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.28  E-value=1.8e-09  Score=85.74  Aligned_cols=244  Identities=9%  Similarity=-0.025  Sum_probs=168.7

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK  133 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  133 (344)
                      ++-..-.|++..++.-...+..   ..++ ....-+.+++...|++...         ..-.|....+..+...+ ..+ 
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~~---~~~~-~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~-   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFSK---VTDN-TLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK-   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSSC---CCCH-HHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT-
T ss_pred             HHHHHHhhHHHHHHHHHHhcCc---cchH-HHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc-
Confidence            4556678999998884443322   1222 2333456778777776632         11244444444444433 322 


Q ss_pred             hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCC-CcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          134 LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL-QPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       134 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                         |...|+++...+.++..+...+..++...|++++|++++.+....|. .-+...+..++..+.+.|+.+.|.+.+++
T Consensus        85 ---a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 ---NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             ---CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence               77888887766556666677888999999999999999999877653 22566777888999999999999999999


Q ss_pred             HHHhcCCCC-----CHHHHHHHHHHH--HhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHH
Q 038490          213 IMRVYNVKP-----DGQVFASLIKGL--CAVG--ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKE  283 (344)
Q Consensus       213 ~~~~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  283 (344)
                      +.+.   .|     +..+...++.++  ...|  ++.+|..+|+++.+..  |+..+-..++.++.+.|++++|.+.++.
T Consensus       162 ~~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~  236 (310)
T 3mv2_B          162 YTNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVEL  236 (310)
T ss_dssp             HHHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHH
Confidence            7554   56     355666666563  3334  8999999999997763  4533444555589999999999999997


Q ss_pred             HHHcC-----C----CCChhhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          284 MKERG-----C----KPNSVTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       284 ~~~~~-----~----~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      +.+..     .    +-|..+...+|......|+  +|.++++++.+.
T Consensus       237 l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          237 LLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            76531     0    2256666566666666676  889999999875

>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=99.28  E-value=1e-10  Score=105.31  Aligned_cols=172  Identities=8%  Similarity=-0.040  Sum_probs=103.5

Q ss_pred             HhcCCchHHHHHHHHhh--------hcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490           58 GRAKMFDEMQQILHQLK--------HDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  129 (344)
                      ...|++++|++.+++..        +.  .+.+...+..+..++...|++++|++.|+++.+.+ +.+...|..+..++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD--FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C--CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc--cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHH
Confidence            55666667766666665        32  13344556666666666677777777776666654 445666666666666


Q ss_pred             hcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHH
Q 038490          130 TCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKL  209 (344)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (344)
                      ..|++++|...|++..+..+.+...+..+..++.+.|++++ ++.|++..+.+. -+...+..+..++.+.|++++|+..
T Consensus       479 ~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66777777777766666666666666666666666777766 666666665432 2445566666666666777777666


Q ss_pred             HHHHHHhcCCCCC-HHHHHHHHHHHHhcC
Q 038490          210 KEDIMRVYNVKPD-GQVFASLIKGLCAVG  237 (344)
Q Consensus       210 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  237 (344)
                      |+++++.   .|+ ...+..+..++...+
T Consensus       557 ~~~al~l---~P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          557 LDEVPPT---SRHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHTSCTT---STTHHHHHHHHHHHTC---
T ss_pred             HHhhccc---CcccHHHHHHHHHHHHccC
Confidence            6665432   333 344555555544433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.28  E-value=2.9e-08  Score=79.51  Aligned_cols=224  Identities=11%  Similarity=0.014  Sum_probs=141.3

Q ss_pred             HHhcCC-chHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcc--cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH----H
Q 038490           57 LGRAKM-FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRAR--LLERALQMFDEMSSFNVQMTVKFFNTLLNPK----L  129 (344)
Q Consensus        57 ~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~  129 (344)
                      ..+.|. .++|+++++.+....  +-+..+|+.--.++...+  +++++++.++.++..+ +-+..+|+.--.++    .
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~  118 (306)
T 3dra_A           42 LMKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIME  118 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHH
Confidence            334444 468999999988753  334566777677777777  8999999999988876 55556666554444    4


Q ss_pred             hc---CChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChh--HHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch--
Q 038490          130 TC---GKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLE--DAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR--  202 (344)
Q Consensus       130 ~~---~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  202 (344)
                      ..   +++++++.+++.+.+..+.+..+|+--...+.+.|.++  ++++.++++.+.+.. +-..|+.-...+...++  
T Consensus       119 ~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          119 LNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             HTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGC
T ss_pred             hccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccc
Confidence            44   67888888888888888788888888777777788877  888888888876443 55556555444445444  


Q ss_pred             ----HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH-HHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCcC
Q 038490          203 ----VDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS-LALGVKEEMVRDK--IEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       203 ----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                          ++++++.+.+++...  +-|...|+.+-..+.+.|+.. .+..+..++.+.+  -..+...+..++..|.+.|+.+
T Consensus       198 ~~~~~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             hhhhHHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                556666666555542  445555555555555555422 2333444433322  0124455555555555555555


Q ss_pred             cHHHHHHHHHH
Q 038490          276 EFPAILKEMKE  286 (344)
Q Consensus       276 ~a~~~~~~~~~  286 (344)
                      +|.++++.+.+
T Consensus       276 ~A~~~~~~l~~  286 (306)
T 3dra_A          276 ESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555555543

>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=99.27  E-value=1e-10  Score=86.65  Aligned_cols=164  Identities=8%  Similarity=-0.078  Sum_probs=108.5

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      ..+......+.+.|++++|...|++..+..  +.+...+..+..++...|++++|+..++...... + +...+..+...
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~-p-~~~~~~~~~~~   82 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDEL--QSRGDVKLAKADCLLETKQFELAQELLATIPLEY-Q-DNSYKSLIAKL   82 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHH--HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG-C-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc-C-ChHHHHHHHHH
Confidence            345567777888888888888888877642  4456777778888888888888888888877654 2 44433332222


Q ss_pred             -HHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCc-CHhhHHHHHHHHHhhchHHH
Q 038490          128 -KLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP-TLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       128 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  205 (344)
                       +...++...|...+++.....|.+...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+.++
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence             1122233346677777766666667777777777777777777777777777664322 24456666677777777777


Q ss_pred             HHHHHHHHHH
Q 038490          206 ALKLKEDIMR  215 (344)
Q Consensus       206 a~~~~~~~~~  215 (344)
                      |...|++.+.
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777766543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.27  E-value=7.1e-10  Score=84.50  Aligned_cols=163  Identities=8%  Similarity=-0.044  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHH----------------HHHHHHhcCChHHHHHHHHHHhccC
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNT----------------LLNPKLTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~  148 (344)
                      .+......+...|++++|+..|+...+.. +.+...+..                +..++.+.|++++|...|++..+..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            34445566778899999999999988765 334555555                6666777777777777777776666


Q ss_pred             CCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch--HHHHHHHHHHHHHhcCCCCCHHHH
Q 038490          149 SPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR--VDEALKLKEDIMRVYNVKPDGQVF  226 (344)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~  226 (344)
                      |.+...+..+..++...|++++|+..|++..+.. +-+...+..+...+...|+  ...+...+..+.   ...|....+
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~a~  160 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS---SPTKMQYAR  160 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC------CCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh---CCCchhHHH
Confidence            6666677777777777777777777777766653 2244555555555544433  233344444322   111222222


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          227 ASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       227 ~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      .....++...|++++|...|++..+.
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            33334445566666666666666654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.26  E-value=1.5e-08  Score=81.13  Aligned_cols=233  Identities=8%  Similarity=0.026  Sum_probs=183.6

Q ss_pred             ccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHhccCCCCcccHHHHHHHH----Hhh---CC
Q 038490           97 RLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG--KLDRMKELFQIMEKYVSPDACSYNILIHGC----VVS---RR  167 (344)
Q Consensus        97 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~  167 (344)
                      ...++|+++++.++..+ +-+..+|+.--.++...+  ++++++..++.+....+.+..+|+.--..+    ...   ++
T Consensus        47 e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           47 EYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCC
Confidence            34468999999999887 667788888888888888  999999999999998888888887766665    555   78


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH--HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC------h
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD--EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE------L  239 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~  239 (344)
                      +++++.+++++.+...+ +-..|+.-.-.+.+.|.++  +++..+.++++..  +-+...|+.-.......+.      +
T Consensus       126 ~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          126 PYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             THHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccchhhhH
Confidence            99999999999987433 6667776666677778887  9999999998864  5677778777666777776      8


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCc-HHHHHHHHHHcC--CCCChhhHHHHHHHHhccCCHHHHHHHH
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNE-FPAILKEMKERG--CKPNSVTYNALISGFCKEEDFEAAFTIL  316 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~  316 (344)
                      +++++.++.+....+. |...|+.+...+.+.|+..+ +..+..++...+  -..+...+..+...+.+.|+.++|.+++
T Consensus       203 ~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          203 DEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            8999999999998776 99999999999988888554 556777665543  1237778888999999999999999999


Q ss_pred             HHHhhCCCCC-ChhhHHHHH
Q 038490          317 DEMGDKGCKA-NPISYNVIL  335 (344)
Q Consensus       317 ~~~~~~~~~p-~~~~~~~ll  335 (344)
                      +.+.+. +.| ...-|+...
T Consensus       282 ~~l~~~-~Dpir~~yW~~~~  300 (306)
T 3dra_A          282 DLLKSK-YNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHT-TCGGGHHHHHHHH
T ss_pred             HHHHhc-cChHHHHHHHHHH
Confidence            999863 233 344454443

>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=99.26  E-value=1.9e-10  Score=82.73  Aligned_cols=143  Identities=9%  Similarity=-0.119  Sum_probs=79.9

Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      ..+...|++++|+..++...... +-+...+..+...|.+.|++++|+..|+++++..  +.+..+|..+..++.+.|++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ--ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCch
Confidence            34445566666666666655431 1123344455566666666666666666666542  33456666666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHH-HHHHHHcCCCCChhhHHHHHHHHhccC
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAI-LKEMKERGCKPNSVTYNALISGFCKEE  307 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~p~~~~~~~l~~~~~~~~  307 (344)
                      ++|...|++..+..+. +...+..+...|.+.|+.++|... +++..+..+. +...|......+...|
T Consensus        82 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            6666666666665433 566666666666666666655543 3555554322 4444554444444444

>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=4.7e-10  Score=90.03  Aligned_cols=168  Identities=12%  Similarity=0.043  Sum_probs=123.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHH-H
Q 038490          115 QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGT-L  193 (344)
Q Consensus       115 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l  193 (344)
                      +.+...+..+...+...|++++|...|++.....+.+...+..+...+.+.|++++|...++++...  .|+...... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            4455667777778888888888888888888877777788888888888888888888888887665  334332222 2


Q ss_pred             HHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcC
Q 038490          194 IYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM-DAGIYSSLISALFKAG  272 (344)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  272 (344)
                      ...+...++.+.|...+++.+...  +.+...+..+...+...|++++|...+.++.+..+.. +...+..++..+...|
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            223556677777888888777653  4567778888888888888888888888888765431 2667788888888888


Q ss_pred             CcCcHHHHHHHHHH
Q 038490          273 RKNEFPAILKEMKE  286 (344)
Q Consensus       273 ~~~~a~~~~~~~~~  286 (344)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            88888877776543

>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=2.5e-09  Score=82.55  Aligned_cols=205  Identities=11%  Similarity=0.027  Sum_probs=111.6

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH---HHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV---KFF  121 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~  121 (344)
                      +...+..+...+.+.|++++|+..|+++.......| ....+..+..++.+.|++++|+..|+.+.+.. +.+.   ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHH
Confidence            445666777888888999999999998887531112 13567778888888999999999999888764 2222   234


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH-hhHHHHHHHHHhh
Q 038490          122 NTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL-VTFGTLIYGLCLE  200 (344)
Q Consensus       122 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~  200 (344)
                      ..+..++...+..     .           ...|..+...+...|++++|...|+++.+..  |+. ........    .
T Consensus        82 ~~~g~~~~~~~~~-----~-----------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~----l  139 (225)
T 2yhc_A           82 YMRGLTNMALDDS-----A-----------LQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKR----L  139 (225)
T ss_dssp             HHHHHHHHHHHC------------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHH----H
T ss_pred             HHHHHHHHhhhhh-----h-----------hhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHH----H
Confidence            4444444432210     0           0112222333444567777777777776652  222 22211110    0


Q ss_pred             chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCCcCcHH
Q 038490          201 LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM--DAGIYSSLISALFKAGRKNEFP  278 (344)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~  278 (344)
                      +..      ... +.        .....+...+.+.|++++|...|+++.+..+..  ....+..+..++.+.|+.++|.
T Consensus       140 ~~~------~~~-~~--------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~  204 (225)
T 2yhc_A          140 VFL------KDR-LA--------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAE  204 (225)
T ss_dssp             HHH------HHH-HH--------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHH------HHH-HH--------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHH
Confidence            000      000 00        011234455666777777777777776653221  1245666667777777777777


Q ss_pred             HHHHHHHHcC
Q 038490          279 AILKEMKERG  288 (344)
Q Consensus       279 ~~~~~~~~~~  288 (344)
                      +.++.+...+
T Consensus       205 ~~~~~l~~~~  214 (225)
T 2yhc_A          205 KVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHCC
T ss_pred             HHHHHHHhhC
Confidence            7777666653

>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=8.1e-10  Score=88.66  Aligned_cols=170  Identities=11%  Similarity=0.015  Sum_probs=138.6

Q ss_pred             CCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHH
Q 038490           80 VPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILI  159 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  159 (344)
                      +.+...+..+...+.+.|++++|...|++..+.. +.+...+..+..++...|++++|...++++....+..........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~  192 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQ  192 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHH
Confidence            4456677788888999999999999999999886 667889999999999999999999999998776552222233333


Q ss_pred             HHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490          160 HGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      ..+...++.+.|...+++..... +.+...+..+...+...|++++|...+.++++...-..+...+..++..+...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            44778888999999999988774 34677888889999999999999999999988742223367889999999999999


Q ss_pred             HHHHHHHHHHHH
Q 038490          240 SLALGVKEEMVR  251 (344)
Q Consensus       240 ~~a~~~~~~~~~  251 (344)
                      ++|...+++...
T Consensus       272 ~~a~~~~r~al~  283 (287)
T 3qou_A          272 DALASXYRRQLY  283 (287)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            999998887653

>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=99.22  E-value=3.9e-10  Score=99.68  Aligned_cols=154  Identities=6%  Similarity=-0.079  Sum_probs=120.4

Q ss_pred             cCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHH
Q 038490           15 QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYG   94 (344)
Q Consensus        15 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~   94 (344)
                      .|++++|+..|++....           .+.+...|..+...+.+.|++++|.+.+++..+..  +.+...+..+..++.
T Consensus         2 ~g~~~~A~~~~~~al~~-----------~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~   68 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH-----------RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH--PGHPEAVARLGRVRW   68 (568)
T ss_dssp             ------------------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS--TTCHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH
Confidence            47889999999987443           33378889999999999999999999999998752  455788889999999


Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh---CChhHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS---RRLEDA  171 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a  171 (344)
                      ..|++++|.+.+++..+.. +.+...+..+..++...|++++|...+++..+..+.+...+..+...+...   |+.++|
T Consensus        69 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A  147 (568)
T 2vsy_A           69 TQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVL  147 (568)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHH
T ss_pred             HCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHH
Confidence            9999999999999999876 667889999999999999999999999999888777888899999999999   999999


Q ss_pred             HHHHHHHhhCC
Q 038490          172 WKVFDEMVKRR  182 (344)
Q Consensus       172 ~~~~~~~~~~~  182 (344)
                      .+.+++..+.+
T Consensus       148 ~~~~~~al~~~  158 (568)
T 2vsy_A          148 SAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHhcC
Confidence            99999988764

>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=99.20  E-value=7.2e-10  Score=98.01  Aligned_cols=154  Identities=7%  Similarity=-0.161  Sum_probs=115.1

Q ss_pred             cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490           60 AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKE  139 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  139 (344)
                      .|++++|.+.+++..+..  +.+...+..+...+...|++++|.+.|++..+.. +.+...+..+..++...|++++|..
T Consensus         2 ~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR--PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            478889999999887642  4457788888899999999999999999998876 5678888899999999999999999


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh---chHHHHHHHHHHHHHh
Q 038490          140 LFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE---LRVDEALKLKEDIMRV  216 (344)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  216 (344)
                      .+++..+..+.+...+..+..+|.+.|++++|.+.+++..+.. +.+...+..+...+...   |+.++|...+++.++.
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999888877778888899999999999999999999988763 23566777888888888   9999999999988876


Q ss_pred             c
Q 038490          217 Y  217 (344)
Q Consensus       217 ~  217 (344)
                      .
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.20  E-value=1.3e-08  Score=78.53  Aligned_cols=204  Identities=6%  Similarity=-0.078  Sum_probs=130.1

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC-C-CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcc---cHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQ-M-TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDAC---SYNI  157 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~  157 (344)
                      ...+..+...+.+.|++++|+..|+.+.+.... + ....+..+..++.+.|++++|...|+++.+..|.+..   ++..
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            345556677788889999999999988875411 1 1356777888888899999999999888876654332   3444


Q ss_pred             HHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490          158 LIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG  237 (344)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  237 (344)
                      +..++.+.+..     .++            .|..+...+...|++++|...|+++++..  +.+..........     
T Consensus        84 ~g~~~~~~~~~-----~~~------------~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l-----  139 (225)
T 2yhc_A           84 RGLTNMALDDS-----ALQ------------GFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL-----  139 (225)
T ss_dssp             HHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH-----
T ss_pred             HHHHHHhhhhh-----hhh------------hhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH-----
Confidence            44455443321     111            12223344456799999999999988753  2222222221110     


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC--hhhHHHHHHHHhccCCHHHHHHH
Q 038490          238 ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN--SVTYNALISGFCKEEDFEAAFTI  315 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~  315 (344)
                           ..+...+        ......+...|.+.|++++|+..|+++.+..+...  ...+..+..++.+.|++++|...
T Consensus       140 -----~~~~~~~--------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~  206 (225)
T 2yhc_A          140 -----VFLKDRL--------AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKV  206 (225)
T ss_dssp             -----HHHHHHH--------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -----HHHHHHH--------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHH
Confidence                 0011111        11223567889999999999999999998743211  24677888999999999999999


Q ss_pred             HHHHhhCC
Q 038490          316 LDEMGDKG  323 (344)
Q Consensus       316 ~~~~~~~~  323 (344)
                      ++.+...+
T Consensus       207 ~~~l~~~~  214 (225)
T 2yhc_A          207 AKIIAANS  214 (225)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHhhC
Confidence            99998763

>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=99.14  E-value=2e-08  Score=89.38  Aligned_cols=250  Identities=14%  Similarity=0.093  Sum_probs=180.9

Q ss_pred             hhhHHHHHHHHHhcC-------CchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHH-HHHHHHHhcCCCCCH
Q 038490           47 LLHYDLIITKLGRAK-------MFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERAL-QMFDEMSSFNVQMTV  118 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~  118 (344)
                      ...|...+..--..+       ..+++..+|++....  .+-....|...+..+...|+.++|. ++|+...... +.+.
T Consensus       302 l~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~  378 (679)
T 4e6h_A          302 LLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH--VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSA  378 (679)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCH
Confidence            356766666544332       123466788888875  4556778888888888889988996 9999998754 6677


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccC----------CCC------------cccHHHHHHHHHhhCChhHHHHHHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYV----------SPD------------ACSYNILIHGCVVSRRLEDAWKVFD  176 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~  176 (344)
                      ..|..++....+.|+++.|..+|+.+....          .|+            ...|...+....+.|+.+.|..+|.
T Consensus       379 ~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~  458 (679)
T 4e6h_A          379 VLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFG  458 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            788888888899999999999999887542          121            2357777888888899999999999


Q ss_pred             HHhhCCCCcCHhhHHHHHHHHHhh-chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 038490          177 EMVKRRLQPTLVTFGTLIYGLCLE-LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIE  255 (344)
Q Consensus       177 ~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  255 (344)
                      +..+.-.......|......-.+. ++.+.|..+|+..++..  +.+...+...+......|+.+.|..+|++.......
T Consensus       459 ~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~  536 (679)
T 4e6h_A          459 KCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISD  536 (679)
T ss_dssp             HHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSS
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCC
Confidence            988761111233343332222333 45899999999988864  556677778888888889999999999999887542


Q ss_pred             C--CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038490          256 M--DAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGF  303 (344)
Q Consensus       256 ~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  303 (344)
                      +  ....|...+..-.+.|+.+.+..+.+++.+.-  |+......++.-|
T Consensus       537 ~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~--P~~~~~~~f~~ry  584 (679)
T 4e6h_A          537 SHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF--PEVNKLEEFTNKY  584 (679)
T ss_dssp             TTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS--TTCCHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHh
Confidence            2  45678888888888999999999999998873  4444444444444

>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=99.12  E-value=1.2e-08  Score=77.77  Aligned_cols=130  Identities=8%  Similarity=-0.070  Sum_probs=111.1

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...+..+...+...|++++|+..|++..     .|+...+..+..++...|++++|+..|+...+.. +.+...+..+..
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~   79 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            3446677888889999999999998763     4577889999999999999999999999999876 667888999999


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCc----------------ccHHHHHHHHHhhCChhHHHHHHHHHhhCC
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDA----------------CSYNILIHGCVVSRRLEDAWKVFDEMVKRR  182 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  182 (344)
                      ++...|++++|...|++..+..+.+.                ..+..+..+|.+.|++++|...|++..+..
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            99999999999999999888665444                677888889999999999999999988764

>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=99.11  E-value=6.2e-09  Score=79.46  Aligned_cols=128  Identities=7%  Similarity=-0.092  Sum_probs=60.5

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcc----cHHHHHHHHHHHHhcCCCCCHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRAR----LLERALQMFDEMSSFNVQMTVKFF  121 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~  121 (344)
                      +..++..+...+...+++++|.++|++..+.    -+...+..+...|.. +    ++++|.++|++..+.|   +...+
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~----g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQ----GDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT----TCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            4445555555555555555555555555442    133444444444444 3    5555555555554432   33344


Q ss_pred             HHHHHHHHh----cCChHHHHHHHHHHhccCCC--CcccHHHHHHHHHh----hCChhHHHHHHHHHhhC
Q 038490          122 NTLLNPKLT----CGKLDRMKELFQIMEKYVSP--DACSYNILIHGCVV----SRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       122 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  181 (344)
                      ..|...|..    .+++++|..+|++..+.++.  ...++..|...|..    .+++++|..+|++..+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  158 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL  158 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc
Confidence            444444444    44555555555554443321  13444444444444    44445555555444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.10  E-value=7.4e-09  Score=72.36  Aligned_cols=124  Identities=7%  Similarity=-0.059  Sum_probs=101.6

Q ss_pred             CCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHH
Q 038490           40 LKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVK  119 (344)
Q Consensus        40 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  119 (344)
                      ....+.+...|..+...+.+.|++++|...|++..+.  .+.+...+..+..++...|++++|.+.+++..+.. +.+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~   85 (133)
T 2lni_A            9 SHMNPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIK   85 (133)
T ss_dssp             CCSSSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             CCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchH
Confidence            4455668888999999999999999999999998875  24467788888899999999999999999998876 56778


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      .+..+..++...|++++|...+++.....+.+...+..+..++.+.|
T Consensus        86 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           86 GYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhc
Confidence            88888889999999999999998887766656666777777666554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.10  E-value=1.1e-08  Score=78.03  Aligned_cols=163  Identities=12%  Similarity=-0.028  Sum_probs=87.7

Q ss_pred             CcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc----hHHHHHHHHHHHHHhcCCCCCHHHH
Q 038490          151 DACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL----RVDEALKLKEDIMRVYNVKPDGQVF  226 (344)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~  226 (344)
                      +..++..+...|...+++++|+.+|++..+.|   +...+..+...|.. +    ++++|...|++..+.    .+...+
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~~~a~   88 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GSKSGE   88 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TCHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CCHHHH
Confidence            44445555555555555555555555555543   33344444444444 4    566666666555432    244455


Q ss_pred             HHHHHHHHh----cCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHH----cCCcCcHHHHHHHHHHcCCCCChhhHH
Q 038490          227 ASLIKGLCA----VGELSLALGVKEEMVRDKIE-MDAGIYSSLISALFK----AGRKNEFPAILKEMKERGCKPNSVTYN  297 (344)
Q Consensus       227 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~  297 (344)
                      ..+...|..    .+++++|...|++..+.+.. .++..+..|...|..    .+++++|...|++..+.  ..+...+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~  166 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHH
Confidence            555555544    55666666666666655421 014555566666665    55666666666666654  12334455


Q ss_pred             HHHHHHhcc-C-----CHHHHHHHHHHHhhCC
Q 038490          298 ALISGFCKE-E-----DFEAAFTILDEMGDKG  323 (344)
Q Consensus       298 ~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  323 (344)
                      .|...|... |     +.++|..+|++..+.|
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            555555432 2     6667777777666655

>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=99.09  E-value=9.4e-09  Score=83.34  Aligned_cols=227  Identities=9%  Similarity=0.017  Sum_probs=136.4

Q ss_pred             hcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490           59 RAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMK  138 (344)
Q Consensus        59 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  138 (344)
                      ..|++++|.+++++..+..  +..         .+...++++.|...|...               ...|...|++++|.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~--~~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~   56 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL--KTS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAK   56 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH--CCC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc--ccc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHH
Confidence            3577888999888876642  111         011135666666666544               34556667777777


Q ss_pred             HHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCCc-CHhhHHHHHHHHHhhchHHHHH
Q 038490          139 ELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQP-TLVTFGTLIYGLCLELRVDEAL  207 (344)
Q Consensus       139 ~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~  207 (344)
                      ..|.+......      ....+|+.+..+|.+.|++++|+..|++..+.    |-.. ...++..+...|.. |++++|+
T Consensus        57 ~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~  135 (307)
T 2ifu_A           57 DAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAV  135 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHH
Confidence            77766544321      11345666777777788888888877776532    2111 13456666677777 8888888


Q ss_pred             HHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCC-HHHHHHHHHHHHHcCCcCcHH
Q 038490          208 KLKEDIMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKI----EMD-AGIYSSLISALFKAGRKNEFP  278 (344)
Q Consensus       208 ~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-~~~~~~l~~~~~~~g~~~~a~  278 (344)
                      ..|++.++...-..+    ..++..+...+.+.|++++|+..+++..+...    .+. ...+..+..++...|++++|.
T Consensus       136 ~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~  215 (307)
T 2ifu_A          136 HLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQ  215 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            888877654211111    35677777888888888888888888775321    111 225556666777778888888


Q ss_pred             HHHHHHHHcCCCC-Ch---hhHHHHHHHHhccCCHHHHHH
Q 038490          279 AILKEMKERGCKP-NS---VTYNALISGFCKEEDFEAAFT  314 (344)
Q Consensus       279 ~~~~~~~~~~~~p-~~---~~~~~l~~~~~~~~~~~~a~~  314 (344)
                      ..|++.. ..... +.   .....++.++ ..|+.+.+..
T Consensus       216 ~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          216 KCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            8888877 42110 11   1233444444 4566655555

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=99.08  E-value=8.6e-10  Score=90.56  Aligned_cols=122  Identities=8%  Similarity=-0.062  Sum_probs=70.9

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc----------------hhHHHHHHHHHHhcccHHHHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK----------------EIIFCNVIGFYGRARLLERALQMFDEM  109 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~  109 (344)
                      +...|..+...+.+.|++++|+..|++.....   |+                ...+..+..++.+.|++++|+..|++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~---p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  222 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWL---EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKA  222 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT---TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh---hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45566777777777777777777777766642   22                245555555555555555555555555


Q ss_pred             HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHH
Q 038490          110 SSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDA  171 (344)
Q Consensus       110 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (344)
                      ++.. +.+...+..+..+|...|++++|...|++..+..+.+...+..+..++.+.|+.++|
T Consensus       223 l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          223 LELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            5544 344555555555555555555555555555555444455555555555555555554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.07  E-value=3.9e-07  Score=73.88  Aligned_cols=157  Identities=9%  Similarity=-0.009  Sum_probs=96.8

Q ss_pred             HHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-C
Q 038490           55 TKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRAR-LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC-G  132 (344)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~  132 (344)
                      ....+.+..++|+++++.+....  +-+..+|+.--.++...+ .++++++.++.++..+ +-+..+|+.-..++... +
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcC
Confidence            33344455567888888887752  334455666555666666 4888888888888776 56677777766666665 5


Q ss_pred             -ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChh--------HHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhch-
Q 038490          133 -KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLE--------DAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELR-  202 (344)
Q Consensus       133 -~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  202 (344)
                       ++++++.+++.+.+..+.+..+|+--...+.+.|.++        ++++.++++.+.... +...|+.....+.+.++ 
T Consensus       139 ~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTC
T ss_pred             CChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccc
Confidence             6777778888877777777777776666665555555        566666666555322 44445444444444443 


Q ss_pred             ------HHHHHHHHHHHHH
Q 038490          203 ------VDEALKLKEDIMR  215 (344)
Q Consensus       203 ------~~~a~~~~~~~~~  215 (344)
                            ++++++.+.+.+.
T Consensus       218 ~~~~~~~~eELe~~~~aI~  236 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIH  236 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHH
Confidence                  3444444444443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.06  E-value=2.2e-09  Score=85.77  Aligned_cols=195  Identities=10%  Similarity=-0.005  Sum_probs=130.2

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...+..+...+.+.|++++|+..|++.....  +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            56778888899999999999999999988752  4467788889999999999999999999998876 66788888999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      .++...|++++|...|++.....+.+...+...+....+..   .+.. +........+.+......+. . ...|+.++
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~i~~~l~-~-l~~~~~~~  153 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIA---KKKR-WNSIEERRIHQESELHSYLT-R-LIAAERER  153 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHH---HHHH-HHHHHHTCCCCCCHHHHHHH-H-HHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHHH---HHHH-HHHHHHHHHhhhHHHHHHHH-H-HHHHHHHH
Confidence            99999999999999998887655423222222222222211   1111 22222232333444333332 2 23788888


Q ss_pred             HHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhc-CChHHHHHHHHHHHHC
Q 038490          206 ALKLKEDIMRVYNVKPDG-QVFASLIKGLCAV-GELSLALGVKEEMVRD  252 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~  252 (344)
                      |++.++..++.   .|+. .....+...+.+. +.+++|.++|..+.+.
T Consensus       154 A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          154 ELEECQRNHEG---HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHTTTSGGGTT---TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHhhhcc---ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            88888775543   4543 3333444444444 5677888888877653

>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=99.05  E-value=1.2e-09  Score=82.43  Aligned_cols=159  Identities=8%  Similarity=-0.073  Sum_probs=79.7

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP   81 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (344)
                      |..+...+......|++++|.+.|+.....           .......+..+...+...|++++|...|++......-.|
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~   72 (198)
T 2fbn_A            4 SHHHHHHSSGRENLYFQGAKKSIYDYTDEE-----------KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTE   72 (198)
T ss_dssp             ------------------CCCSGGGCCHHH-----------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCT
T ss_pred             cccccchhhhhhhhhhccccCchhhCCHHH-----------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccc
Confidence            344555666667778888888888764221           122455677778888888888888888888776421111


Q ss_pred             c--------------hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc
Q 038490           82 K--------------EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus        82 ~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      +              ...+..+..++...|++++|+..++...+.. +.+...+..+..++...|++++|...|++....
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           73 EWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            1              1445555555555666666666665555543 344555555555555555555555555555554


Q ss_pred             CCCCcccHHHHHHHHHhhCChhHHH
Q 038490          148 VSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus       148 ~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      .+.+...+..+..++...++.+++.
T Consensus       152 ~p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          152 NPNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555555554444444433

>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=99.05  E-value=6e-09  Score=84.48  Aligned_cols=191  Identities=10%  Similarity=0.045  Sum_probs=129.8

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCC---CC--CHHHHHHHHHHHHhcCChHHHHHHHHHHhccC----CC--Cccc
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNV---QM--TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV----SP--DACS  154 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~--~~~~  154 (344)
                      |......|...|++++|...|.+..+...   .+  -..+|+.+..+|...|++++|...+++.....    .+  ...+
T Consensus        39 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  118 (307)
T 2ifu_A           39 YAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMA  118 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            44455677788999999988888765320   11  13577888888889999999999888765432    11  2356


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHhhC----CCCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHH
Q 038490          155 YNILIHGCVVSRRLEDAWKVFDEMVKR----RLQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQV  225 (344)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  225 (344)
                      +..+...|.. |++++|+..|++..+.    |... ...++..+...+.+.|++++|+..|++.++...-.++    ...
T Consensus       119 ~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  197 (307)
T 2ifu_A          119 LDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKK  197 (307)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHH
Confidence            7778888888 9999999999887653    1111 1356777888899999999999999988764321122    235


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CH---HHHHHHHHHHHHcCCcCcHHH
Q 038490          226 FASLIKGLCAVGELSLALGVKEEMVRDKIEM-DA---GIYSSLISALFKAGRKNEFPA  279 (344)
Q Consensus       226 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~---~~~~~l~~~~~~~g~~~~a~~  279 (344)
                      +..+..++...|++++|...|++.. ..+.. +.   .....++.++ ..|+.+.+..
T Consensus       198 ~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          198 CIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            6667777888899999999999988 53221 11   2334445544 5666655544

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.04  E-value=1.4e-08  Score=73.96  Aligned_cols=128  Identities=13%  Similarity=0.044  Sum_probs=63.1

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...|..+...+...|++++|...|++.....  +.+..++..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            3345555555555566666666665555431  2334455555555555555555555555555543 334445555555


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHH--HHHHHhhCChhHHHHHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNIL--IHGCVVSRRLEDAWKVFDE  177 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~  177 (344)
                      ++...|++++|...+++.....+.+...+..+  ...+...|++++|...+.+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  142 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  142 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence            55555555555555555544443333333222  2223344444444444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.04  E-value=4.2e-07  Score=73.68  Aligned_cols=221  Identities=10%  Similarity=0.016  Sum_probs=171.1

Q ss_pred             ccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh-C-ChhHHHH
Q 038490           97 RLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG-KLDRMKELFQIMEKYVSPDACSYNILIHGCVVS-R-RLEDAWK  173 (344)
Q Consensus        97 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~  173 (344)
                      +..++|+++++.++..+ +-+..+|+.--.++...| .+++++.+++.+....+.+..+|+.-...+.+. + +++++++
T Consensus        68 e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           68 EKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            33467999999999887 667788888888888888 599999999999998888999999888888777 7 8999999


Q ss_pred             HHHHHhhCCCCcCHhhHHHHHHHHHhhchHH--------HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-------
Q 038490          174 VFDEMVKRRLQPTLVTFGTLIYGLCLELRVD--------EALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE-------  238 (344)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------  238 (344)
                      .++++.+...+ +-..|+.-.-.+.+.|.++        ++++.+.++++..  +-|...|+.....+.+.++       
T Consensus       147 ~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          147 YIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccccchHH
Confidence            99999987533 6666766555556666666        8999999988864  5678888888777777776       


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc--------------------CcHHHHHHHHHHcC-----CCCCh
Q 038490          239 LSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRK--------------------NEFPAILKEMKERG-----CKPNS  293 (344)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~p~~  293 (344)
                      ++++++.+++.....+. |...|+.+-..+.+.|+.                    .+...+..++...+     -.++.
T Consensus       224 ~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          224 LQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence            68999999999988766 888998887777777764                    33444444444332     13577


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHhhC
Q 038490          294 VTYNALISGFCKEEDFEAAFTILDEMGDK  322 (344)
Q Consensus       294 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  322 (344)
                      .....++..|...|+.++|.++++.+.+.
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            78888999999999999999999999754

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=7e-09  Score=71.94  Aligned_cols=110  Identities=6%  Similarity=-0.015  Sum_probs=73.5

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ....+......+.+.|++++|++.|++..+..  +.+...|..+..++.+.|++++|+..|++.++.+ +.+...|..+.
T Consensus        12 ~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg   88 (126)
T 4gco_A           12 LAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKA   88 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHH
Confidence            44566667777777777777777777766642  3456666667777777777777777777777665 55566677777


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNIL  158 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  158 (344)
                      .++...|++++|...|++..+..|.+...+..+
T Consensus        89 ~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l  121 (126)
T 4gco_A           89 ACLVAMREWSKAQRAYEDALQVDPSNEEAREGV  121 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHH
Confidence            777777777777777777766655555544443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.03  E-value=9.9e-09  Score=71.36  Aligned_cols=123  Identities=9%  Similarity=0.003  Sum_probs=94.3

Q ss_pred             CCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      .+.+...+..+...+...|++++|...+++.....  +.+...+..+..++...|++++|...++...+.. +.+...+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   84 (131)
T 2vyi_A            8 DSAEAERLKTEGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYG   84 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             chhhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHH
Confidence            34466778888888888888888888888887652  4456777778888888888888888888888765 55677788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL  168 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (344)
                      .+..++...|++++|...+++.....+.+...+..+..++.+.|++
T Consensus        85 ~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           85 RMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            8888888888888888888888777666667777777777776654

>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=99.01  E-value=6.4e-08  Score=73.74  Aligned_cols=128  Identities=10%  Similarity=-0.087  Sum_probs=102.6

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGL  233 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  233 (344)
                      .+..+...+...|++++|...|++..    .|+...+..+...+...|++++|...+++.++..  +.+...+..+..++
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            34556777888899999999888773    5577788888888888999999999998887753  45677888888888


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCH----------------HHHHHHHHHHHHcCCcCcHHHHHHHHHHcC
Q 038490          234 CAVGELSLALGVKEEMVRDKIEMDA----------------GIYSSLISALFKAGRKNEFPAILKEMKERG  288 (344)
Q Consensus       234 ~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  288 (344)
                      ...|++++|...+++..+.... +.                ..+..+..++...|++++|...|++..+..
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRG-NQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTT-CSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHcccHHHHHHHHHHHHHhCCC-ccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            8999999999999988876533 22                677788888888888888888888888764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.01  E-value=2e-08  Score=69.11  Aligned_cols=114  Identities=11%  Similarity=0.056  Sum_probs=75.3

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...|..+...+...|++++|.+.++++....  +.+..++..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            5566677777777777777777777776642  3445666667777777777777777777776654 455666667777


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ++...|++++|...++++....+.+...+..+...+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            7777777777777777766655545555554444443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.00  E-value=7.3e-09  Score=76.59  Aligned_cols=122  Identities=7%  Similarity=0.089  Sum_probs=102.5

Q ss_pred             HhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHhcCCh--
Q 038490           58 GRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP-KLTCGKL--  134 (344)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  134 (344)
                      ...|++++|...++......  +.+...+..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            45788999999999988753  4567888899999999999999999999998876 5677888888888 7788998  


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCC
Q 038490          135 DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRR  182 (344)
Q Consensus       135 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  182 (344)
                      ++|...+++.....+.+...+..+...|...|++++|...|+++.+..
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            999999999988877788889999999999999999999999988873

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.00  E-value=4.2e-08  Score=71.39  Aligned_cols=128  Identities=9%  Similarity=-0.004  Sum_probs=96.8

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..+..+...+...|++++|...|+...+.. +.+..++..+..++...|++++|...+++.....+.+...+..+..++.
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            456667777888889999999888888765 5567788888888888888888888888888777777778888888888


Q ss_pred             hhCChhHHHHHHHHHhhCCCCcCHhhHH--HHHHHHHhhchHHHHHHHHHHH
Q 038490          164 VSRRLEDAWKVFDEMVKRRLQPTLVTFG--TLIYGLCLELRVDEALKLKEDI  213 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~  213 (344)
                      ..|++++|...|++..+.... +...+.  .....+...|++++|...+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            888888888888888765322 333332  2333366778888888877664

>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=2.2e-09  Score=85.83  Aligned_cols=195  Identities=9%  Similarity=0.015  Sum_probs=136.0

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +...+..+...+...|++++|+..|+...+.. +.+...+..+..++...|++++|...+++..+..+.+...+..+..+
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            45677888899999999999999999999876 56888999999999999999999999999999888888899999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCH-hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTL-VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      +...|++++|...|++..+.+  |+. ..+...+....+..   .+.... . ......+.+......+.. + ..|+.+
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~~---~~~~~~-~-~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRIA---KKKRWN-S-IEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHHH---HHHHHH-H-HHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHHH---HHHHHH-H-HHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            999999999999999987652  211 11111111111111   111111 1 111234445554444433 2 368889


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCcCcHHHHHHHHHHc
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKA-GRKNEFPAILKEMKER  287 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~  287 (344)
                      +|.+.++...+..+. +......+...+.+. +.+++|.++|..+.+.
T Consensus       153 ~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEGHED-DGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTTTSC-HHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhccccc-hhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999888888776432 334444444445554 6678899999877653

>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=98.99  E-value=8.9e-08  Score=77.02  Aligned_cols=162  Identities=10%  Similarity=0.001  Sum_probs=98.2

Q ss_pred             HHHHHhhCChhHHHHHHHHHhhCCC-CcCH----hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHHHHHH
Q 038490          159 IHGCVVSRRLEDAWKVFDEMVKRRL-QPTL----VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQVFASL  229 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l  229 (344)
                      +..+...|++++|...+++..+... .|+.    ..+..+...+...+++++|+..++++++...-.++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            4556666777777777776655321 1221    12223444555566777777777776653222222    2356777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH----C-CCCC-CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc----CCCCC-hhhHHH
Q 038490          230 IKGLCAVGELSLALGVKEEMVR----D-KIEM-DAGIYSSLISALFKAGRKNEFPAILKEMKER----GCKPN-SVTYNA  298 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~----~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~  298 (344)
                      ..+|...|++++|...++++.+    . +..+ ...++..+...|.+.|++++|...+++..+.    +..+. ..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            7777777777777777777763    1 1111 2336677777788888888888877776543    11111 456777


Q ss_pred             HHHHHhccCC-HHHHHHHHHHHh
Q 038490          299 LISGFCKEED-FEAAFTILDEMG  320 (344)
Q Consensus       299 l~~~~~~~~~-~~~a~~~~~~~~  320 (344)
                      +..++.+.|+ +++|...+++..
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHH
Confidence            7778888884 588888877765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.99  E-value=1.4e-07  Score=75.85  Aligned_cols=166  Identities=10%  Similarity=-0.044  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCc------ccHHHHHHHHHhhCChhHHHHHHHHHhhCCC---CcC--Hh
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA------CSYNILIHGCVVSRRLEDAWKVFDEMVKRRL---QPT--LV  188 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  188 (344)
                      .+...+..+...|++++|...+.......+...      ..+..+...+...|++++|+..+++..+...   .+.  ..
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            344556667778888888888877665433221      1233455566677788888888887765321   111  34


Q ss_pred             hHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCC----CCC-CH
Q 038490          189 TFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-----GQVFASLIKGLCAVGELSLALGVKEEMVRDK----IEM-DA  258 (344)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~  258 (344)
                      +++.+...|...|++++|...++++++.....++     ..++..+..+|.+.|++++|...+++..+..    ... -.
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            6677777788888888888888877632111222     1467777778888888888888887776431    111 15


Q ss_pred             HHHHHHHHHHHHcCCcCcH-HHHHHHHH
Q 038490          259 GIYSSLISALFKAGRKNEF-PAILKEMK  285 (344)
Q Consensus       259 ~~~~~l~~~~~~~g~~~~a-~~~~~~~~  285 (344)
                      .+|..+..+|...|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5677777788888888887 66666554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.97  E-value=8.3e-07  Score=76.59  Aligned_cols=154  Identities=13%  Similarity=0.050  Sum_probs=100.4

Q ss_pred             CCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCC-chHHHHHHHHhhhcCCCC-CchhHHHHHHHHH
Q 038490           16 KDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKM-FDEMQQILHQLKHDTRIV-PKEIIFCNVIGFY   93 (344)
Q Consensus        16 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~   93 (344)
                      |+++.|..+|++....            .|++..|...+....+.+. .+....+|+.....-|.. .+...|...+..+
T Consensus        28 ~~~e~~~~iferal~~------------~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~   95 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK------------SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEE   95 (493)
T ss_dssp             TCHHHHHHHHHHHSTT------------CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHhcc------------CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHH
Confidence            7899999999997432            2488899999988877763 466778888877654433 3567777777665


Q ss_pred             H----hcccHHHHHHHHHHHHhcCCCCCHHHHH-----------------------------------------------
Q 038490           94 G----RARLLERALQMFDEMSSFNVQMTVKFFN-----------------------------------------------  122 (344)
Q Consensus        94 ~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----------------------------------------------  122 (344)
                      .    ..++.+.+.++|++.+......-...|.                                               
T Consensus        96 ~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W  175 (493)
T 2uy1_A           96 GKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNA  175 (493)
T ss_dssp             SSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHH
T ss_pred             HhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHH
Confidence            3    3567888999999888732111111221                                               


Q ss_pred             -HHHHHHHhc--CC-----hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          123 -TLLNPKLTC--GK-----LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       123 -~l~~~~~~~--~~-----~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                       ..+..-...  +-     .+.+..+|+++....+.+...|...+..+.+.|+.+.|..++++....
T Consensus       176 ~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          176 ARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence             111110010  00     234556777776666666777777788888889999999999988776

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.97  E-value=5.7e-09  Score=74.68  Aligned_cols=123  Identities=9%  Similarity=0.029  Sum_probs=88.9

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      .....+.+.+...+.++++++          +.| +...+..+...+.+.|++++|+..|+.+.... |.+...|..+..
T Consensus        10 ~~~~~l~~~~~~~~~l~~al~----------l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~   78 (151)
T 3gyz_A           10 SISTAVIDAINSGATLKDINA----------IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAA   78 (151)
T ss_dssp             HHHHHHHHHHHTSCCTGGGCC----------SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHhC----------CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            344556666665555544432          233 34566677777778888888888888887776 566777888888


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ++...|++++|...|++.....|.+...|..+..+|.+.|++++|...|++..+.
T Consensus        79 ~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A           79 IYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888888888888888887777777777888888888888888888888887765

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.97  E-value=1.1e-08  Score=73.11  Aligned_cols=101  Identities=8%  Similarity=-0.028  Sum_probs=49.7

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNT  123 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  123 (344)
                      |.+...+..+...+.+.|++++|+..|++.....  +.+...|..+..++...|++++|+..|++..+.. |.+...|..
T Consensus        33 p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~  109 (151)
T 3gyz_A           33 DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFH  109 (151)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHH
Confidence            3344444555555555555555555555554431  2234444455555555555555555555555443 334444555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhcc
Q 038490          124 LLNPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus       124 l~~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      +..+|...|++++|...|++....
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            555555555555555555554443

>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=98.96  E-value=8.1e-09  Score=73.86  Aligned_cols=101  Identities=8%  Similarity=0.049  Sum_probs=62.0

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...+..+...+.+.|++++|...|+......  +.+...+..+..++...|++++|+..|++..+.+ +.+...+..+.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg   96 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHH
Confidence            55556666666666666666666666665542  3345556666666666666666666666666654 44455566666


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCC
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      .++...|++++|...|++.....+
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~~~p  120 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQELIA  120 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCc
Confidence            666666666666666666555433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.95  E-value=2.1e-08  Score=75.70  Aligned_cols=50  Identities=10%  Similarity=0.003  Sum_probs=20.6

Q ss_pred             hcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 038490           59 RAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMS  110 (344)
Q Consensus        59 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  110 (344)
                      ..|++++|.++++.+...  ......++..+...+...|++++|...+++..
T Consensus         4 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   53 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH--PATASGARFMLGYVYAFMDRFDEARASFQALQ   53 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS--TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            345555555533333221  11223444444455555555555555554444

>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=98.95  E-value=3e-08  Score=79.83  Aligned_cols=201  Identities=10%  Similarity=-0.025  Sum_probs=133.4

Q ss_pred             CcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CCCH----
Q 038490           44 RYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNV-QMTV----  118 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----  118 (344)
                      .|+..+...+...+.-.-     ..++..-...  ..+....+...+..+...|++++|...+++..+... .++.    
T Consensus        43 ~~~~~~l~~i~~~l~~~~-----~~~~~~~~~~--~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~  115 (293)
T 3u3w_A           43 YPSMDILQGIAAKLQIPI-----IHFYEVLIYS--DIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFL  115 (293)
T ss_dssp             CCCHHHHHHHHHHHTCCT-----HHHHHTTTSS--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHhCcCH-----HHHhCCCCCC--cchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHH
Confidence            356666666666554221     1222221111  123455666667778888899999999888876431 2221    


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CC----cccHHHHHHHHHhhCChhHHHHHHHHHhh----C-CCCcC-
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PD----ACSYNILIHGCVVSRRLEDAWKVFDEMVK----R-RLQPT-  186 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~-  186 (344)
                      ..+..+...+...+++++|...+++......  .+    ..+++.+...|...|++++|...|+++.+    . +..+. 
T Consensus       116 ~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (293)
T 3u3w_A          116 QWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFD  195 (293)
T ss_dssp             HHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             HHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHH
Confidence            2344566777777889999998888876433  22    22578888889999999999999888873    1 12222 


Q ss_pred             HhhHHHHHHHHHhhchHHHHHHHHHHHHHhc---CCCCC-HHHHHHHHHHHHhcCC-hHHHHHHHHHHHH
Q 038490          187 LVTFGTLIYGLCLELRVDEALKLKEDIMRVY---NVKPD-GQVFASLIKGLCAVGE-LSLALGVKEEMVR  251 (344)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~  251 (344)
                      ..++..+...|.+.|++++|...+++.++..   +..+. ..+|..+..++.+.|+ +++|.+.+++...
T Consensus       196 ~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          196 VKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            3367778888899999999999988876532   22222 5678888888889994 5889888888764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.94  E-value=3.7e-08  Score=68.21  Aligned_cols=97  Identities=10%  Similarity=-0.012  Sum_probs=70.3

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCV  163 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (344)
                      ..+......+.+.|++++|++.|++.++.. +.+..+|..+..++...|++++|...+++..+..+.+...|..+..++.
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            455666777777777777777777777665 5566777777777777777777777777777766666677777777777


Q ss_pred             hhCChhHHHHHHHHHhhC
Q 038490          164 VSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~  181 (344)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            777777777777777665

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.94  E-value=5.4e-08  Score=66.90  Aligned_cols=98  Identities=12%  Similarity=0.150  Sum_probs=66.3

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...+..+...+...|++++|.+.++++.+.. +.+..++..+..++...|++++|...++++....+.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            4556666677777777777777777776654 445666666777777777777777777776665555566666666667


Q ss_pred             HhhCChhHHHHHHHHHhhC
Q 038490          163 VVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            7777777777777666554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.93  E-value=5.2e-07  Score=72.51  Aligned_cols=166  Identities=10%  Similarity=-0.006  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CC----c
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV------KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PD----A  152 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~----~  152 (344)
                      .+...+..+...|++++|.+.+....+.. +...      ..+..+...+...|++++|...+++......  .+    .
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKE-EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccc-cCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            44556778889999999999999888754 2222      2344456677888999999999998875433  11    3


Q ss_pred             ccHHHHHHHHHhhCChhHHHHHHHHHhh---C-CCCc--CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhc---CCCC-C
Q 038490          153 CSYNILIHGCVVSRRLEDAWKVFDEMVK---R-RLQP--TLVTFGTLIYGLCLELRVDEALKLKEDIMRVY---NVKP-D  222 (344)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~  222 (344)
                      .+++.+...|...|++++|...|++..+   . +..+  ...++..+...|...|++++|...+++.++..   +... -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            4788899999999999999999999873   2 1111  12578888889999999999999999876542   1111 1


Q ss_pred             HHHHHHHHHHHHhcCChHHH-HHHHHHHHH
Q 038490          223 GQVFASLIKGLCAVGELSLA-LGVKEEMVR  251 (344)
Q Consensus       223 ~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  251 (344)
                      ..+|..+..+|.+.|++++| ...+++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            66788999999999999999 777777653

>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=98.91  E-value=3.7e-08  Score=72.75  Aligned_cols=121  Identities=7%  Similarity=0.064  Sum_probs=74.8

Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHhcCCh--
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKG-LCAVGEL--  239 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  239 (344)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...++++++..  +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            45566777777777666553 2355566666666777777777777777766543  3355566666666 5566666  


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ++|...+++..+..+. +...+..+...+...|++++|...|+++.+.
T Consensus        98 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            7777777777665433 5566666667777777777777777776665

>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=1.9e-08  Score=78.83  Aligned_cols=186  Identities=10%  Similarity=-0.037  Sum_probs=113.9

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHH-------HHHHHhcCChHHHHHHHHHHhccCC------CC----------
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTL-------LNPKLTCGKLDRMKELFQIMEKYVS------PD----------  151 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~------~~----------  151 (344)
                      ..++...|.+.|.++.+.. +-....|..+       ...+.+.++..++...++.-....+      .+          
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            4677777777777777765 4556666666       3444444444444444444333211      01          


Q ss_pred             -----cccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----
Q 038490          152 -----ACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----  222 (344)
Q Consensus       152 -----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  222 (344)
                           ....-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+    .++    
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~----~~d~~~~  170 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGK----WPDKFLA  170 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG----CSCHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhc----cCCcccH
Confidence                 1112345566777888888888887776553  3332333444567778888888888865322    222    


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          223 GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD--AGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       223 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ...+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            23566667777788888888888887775432133  335566677777788888888888888776

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.90  E-value=3.5e-08  Score=70.00  Aligned_cols=101  Identities=18%  Similarity=0.095  Sum_probs=67.6

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...+..+...+.+.|++++|...|++.....  +.+...+..+..++...|++++|+..|+...+.+ +.+...+..+.
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   93 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHH
Confidence            55566666677777777777777777766642  3455666666777777777777777777777665 45556666667


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCC
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      .++...|++++|...|+......+
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSARALAA  117 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC
Confidence            777777777777777776655443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.90  E-value=5.8e-08  Score=67.69  Aligned_cols=100  Identities=8%  Similarity=-0.038  Sum_probs=71.4

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      .+...+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++.....+.+...+..+..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            345566667777777777777777777777654 4466677777777777777777777777777666666667777777


Q ss_pred             HHHhhCChhHHHHHHHHHhhC
Q 038490          161 GCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ++.+.|++++|...|++..+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHh
Confidence            777777777777777776654

>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=98.89  E-value=1.9e-08  Score=71.89  Aligned_cols=98  Identities=10%  Similarity=-0.025  Sum_probs=63.7

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...+..+...+...|++++|+..|+.....+ +.+...|..+..++...|++++|...|++.....+.+...+..+..+|
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3455556666666677777777776666654 455666666666666667777777766666666555666666666666


Q ss_pred             HhhCChhHHHHHHHHHhhC
Q 038490          163 VVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...|++++|...|++..+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.89  E-value=4.5e-08  Score=73.92  Aligned_cols=158  Identities=11%  Similarity=-0.108  Sum_probs=116.3

Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc------CCCCcccHHHHHHHHHhhCC
Q 038490           94 GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY------VSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~  167 (344)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++....      .+....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4678999999966655442 1345678889999999999999999999887652      11345678888899999999


Q ss_pred             hhHHHHHHHHHhhC----CCCc--CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcC
Q 038490          168 LEDAWKVFDEMVKR----RLQP--TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD----GQVFASLIKGLCAVG  237 (344)
Q Consensus       168 ~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~  237 (344)
                      +++|...+++..+.    +..+  ....+..+...+...|++++|...+++.++......+    ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            99999999887653    2122  2345777788889999999999999987754222222    234678888899999


Q ss_pred             ChHHHHHHHHHHHHC
Q 038490          238 ELSLALGVKEEMVRD  252 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~  252 (344)
                      ++++|...+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999888753

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.88  E-value=6.9e-08  Score=66.95  Aligned_cols=98  Identities=7%  Similarity=-0.021  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++.....+.+...+..+...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            3445555566666666666666666666554 345555666666666666666666666665555444455555555556


Q ss_pred             HhhCChhHHHHHHHHHhhC
Q 038490          163 VVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...|++++|...|++..+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            6666666666666555544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.86  E-value=1.8e-07  Score=73.35  Aligned_cols=199  Identities=9%  Similarity=-0.103  Sum_probs=144.4

Q ss_pred             hcCCchHHHHHHHHhhhcCCCCCchhHHHHH-------HHHHHhcccHHHHHHHHHHHHh------------cCCC----
Q 038490           59 RAKMFDEMQQILHQLKHDTRIVPKEIIFCNV-------IGFYGRARLLERALQMFDEMSS------------FNVQ----  115 (344)
Q Consensus        59 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~------------~~~~----  115 (344)
                      ..++...|.+.|.++.+..  +-....|..+       ...+.+.++..+++..+..-..            .|+-    
T Consensus        18 ~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            6899999999999999863  4446777777       4566666666666666555544            1210    


Q ss_pred             ----CCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC--Hhh
Q 038490          116 ----MTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT--LVT  189 (344)
Q Consensus       116 ----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~  189 (344)
                          .-......+...+...|++++|.++|+.+...++.+. ....+...+.+.+++++|+..|+...... .|.  ...
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                0134456677888899999999999999987665344 66777778999999999999998665432 121  235


Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD--GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSL  264 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  264 (344)
                      +..+..++...|++++|+..|++.... ...|.  .........++.+.|+.++|..+|+++....  |+...+..|
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g-~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~~~aL  247 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDS-PAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTS-TTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcC-CCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHH
Confidence            667788999999999999999997642 22143  3456667778899999999999999999875  444444444

>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=98.85  E-value=1.5e-07  Score=77.19  Aligned_cols=151  Identities=12%  Similarity=0.027  Sum_probs=112.1

Q ss_pred             cCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC---------------HHHHHHH
Q 038490           60 AKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT---------------VKFFNTL  124 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l  124 (344)
                      .+++++|++.++......  +.+...+..+...+.+.|++++|+..|++..+.. +.+               ..+|..+
T Consensus       126 L~~~~~A~~~~~~a~~~~--p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nl  202 (336)
T 1p5q_A          126 LKSFEKAKESWEMNSEEK--LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL-EYESSFSNEEAQKAQALRLASHLNL  202 (336)
T ss_dssp             EEEEECCCCGGGCCHHHH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             EeecccccchhcCCHHHH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh-hccccCChHHHHHHHHHHHHHHHHH
Confidence            455666666665544321  1245677888889999999999999999998875 333               4778888


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHH
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVD  204 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (344)
                      ..++.+.|++++|...+++.....+.+...+..+..+|...|++++|...|++..+.. +.+...+..+..++.+.|+.+
T Consensus       203 a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          203 AMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888888888777777888888888888888888888888887763 225566777777777788887


Q ss_pred             HH-HHHHHHHH
Q 038490          205 EA-LKLKEDIM  214 (344)
Q Consensus       205 ~a-~~~~~~~~  214 (344)
                      ++ ...++.++
T Consensus       282 ~a~~~~~~~~~  292 (336)
T 1p5q_A          282 AREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77 34555554

>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=98.85  E-value=8.9e-08  Score=66.26  Aligned_cols=99  Identities=5%  Similarity=-0.047  Sum_probs=59.0

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...|..+...+.+.|++++|+..|++..+..  +.+...+..+..++.+.|++++|+..+++..+.+ +.+...+..+..
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            4455556666666666666666666665542  3345556666666666666666666666666554 444555666666


Q ss_pred             HHHhcCChHHHHHHHHHHhccC
Q 038490          127 PKLTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~  148 (344)
                      ++...|++++|...|++.....
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHhC
Confidence            6666666666666666555443

>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=98.84  E-value=2.1e-07  Score=63.14  Aligned_cols=109  Identities=8%  Similarity=-0.051  Sum_probs=69.2

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ....+..+...+...|++++|...+++.....  +.+...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a   79 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKA   79 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            34556666677777777777777777766542  3355566666666777777777777777766654 44566666666


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNI  157 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (344)
                      .++...|++++|...++...+..+.+...+..
T Consensus        80 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  111 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEEGLKHEANNPQLKEG  111 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHH
Confidence            66666777777777776666554444444333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.82  E-value=2.6e-07  Score=65.67  Aligned_cols=115  Identities=10%  Similarity=-0.100  Sum_probs=89.8

Q ss_pred             CCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc----hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH
Q 038490           43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK----EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV  118 (344)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  118 (344)
                      .+.+...+..+...+...|++++|.+.|++..+.   .|+    ...+..+..++...|++++|...++...+.. +.+.
T Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~   99 (148)
T 2dba_A           24 GASSVEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDV   99 (148)
T ss_dssp             TCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCH
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCH
Confidence            3457788888999999999999999999998874   355    5677778888888999999999998888765 5567


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      ..+..+..++...|++++|...|++.....+.+...+..+...
T Consensus       100 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (148)
T 2dba_A          100 KALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence            7788888888888888888888888877665555555444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.82  E-value=2.4e-07  Score=67.40  Aligned_cols=109  Identities=10%  Similarity=-0.012  Sum_probs=86.9

Q ss_pred             CCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHH
Q 038490           43 FRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFN  122 (344)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  122 (344)
                      .+.+...|..+...+.+.|++++|+..|++..+..  +.+...+..+..++...|++++|+..|++.++.. +.+...|.
T Consensus         7 ~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~   83 (164)
T 3sz7_A            7 PTPESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWS   83 (164)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            34467778888888888999999999998888752  4467778888888888899999999888888876 56678888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhccCCCCccc
Q 038490          123 TLLNPKLTCGKLDRMKELFQIMEKYVSPDACS  154 (344)
Q Consensus       123 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  154 (344)
                      .+..++...|++++|...|++.....+.+...
T Consensus        84 ~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~  115 (164)
T 3sz7_A           84 RLGLARFDMADYKGAKEAYEKGIEAEGNGGSD  115 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHSSSCCH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCchHH
Confidence            88888888888888888888887766544443

>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=98.80  E-value=1.9e-07  Score=64.56  Aligned_cols=98  Identities=7%  Similarity=-0.105  Sum_probs=72.7

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...+..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|...+++.....+.+...|..+..++
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            3456666677777788888888888777765 556777777777777778888888877777777666677777777777


Q ss_pred             HhhCChhHHHHHHHHHhhC
Q 038490          163 VVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...|++++|...|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            7777777777777776654

>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=98.79  E-value=1.9e-08  Score=75.85  Aligned_cols=150  Identities=9%  Similarity=-0.096  Sum_probs=88.6

Q ss_pred             HHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH---------------
Q 038490           54 ITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV---------------  118 (344)
Q Consensus        54 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------  118 (344)
                      +......|.++++.+.++.-...  .......+..+...+...|++++|...|++..+.. +.+.               
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~   87 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEE--KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIE   87 (198)
T ss_dssp             -----------CCCSGGGCCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccCchhhCCHHH--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHH
Confidence            33444556666666665433221  11234556677788888899999999998888753 2222               


Q ss_pred             -HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHH
Q 038490          119 -KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGL  197 (344)
Q Consensus       119 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  197 (344)
                       .++..+..++...|++++|...++......+.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++
T Consensus        88 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           88 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence             5666677777777777777777777776666666677777777777777777777777766552 22444555555555


Q ss_pred             HhhchHHHHH
Q 038490          198 CLELRVDEAL  207 (344)
Q Consensus       198 ~~~~~~~~a~  207 (344)
                      ...++..++.
T Consensus       167 ~~~~~~~~~~  176 (198)
T 2fbn_A          167 NKLKEARKKD  176 (198)
T ss_dssp             HHHHHHHC--
T ss_pred             HHHHHHHHHH
Confidence            5555555544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.79  E-value=1.7e-07  Score=63.05  Aligned_cols=101  Identities=9%  Similarity=-0.091  Sum_probs=73.3

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCC--CHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQM--TVKFFNT  123 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~  123 (344)
                      +...|..+...+...|++++|...+++..+..  +.+...+..+..++...|++++|.+.+++..+.. +.  +...+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~   81 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAA   81 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHH
Confidence            45566677777778888888888888777642  3455667777777777888888888887777764 44  5677777


Q ss_pred             HHHHHHhc-CChHHHHHHHHHHhccCC
Q 038490          124 LLNPKLTC-GKLDRMKELFQIMEKYVS  149 (344)
Q Consensus       124 l~~~~~~~-~~~~~a~~~~~~~~~~~~  149 (344)
                      +..++... |++++|.+.++.+....+
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            77777777 777777777777776554

>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=98.78  E-value=3.5e-05  Score=62.19  Aligned_cols=200  Identities=11%  Similarity=0.009  Sum_probs=135.4

Q ss_pred             hhhHHHHHHHH---HhcCCch-HHHHHHHHhhhcCCCCCc-hhHHHHHHHHHHhccc----------HHHHHHHHHHHHh
Q 038490           47 LLHYDLIITKL---GRAKMFD-EMQQILHQLKHDTRIVPK-EIIFCNVIGFYGRARL----------LERALQMFDEMSS  111 (344)
Q Consensus        47 ~~~~~~l~~~~---~~~~~~~-~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~  111 (344)
                      ...|..+...+   .+.|.++ +|++++..+...   .|+ ..+|+.--.++...+.          +++++.+++.+..
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~---nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~  102 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR  102 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTT---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHH
Confidence            44454444433   3456655 789999999874   344 4455543333322222          6788899999888


Q ss_pred             cCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC-hhHHHHHHHHHhhCCCCcCHh
Q 038490          112 FNVQMTVKFFNTLLNPKLTCG--KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR-LEDAWKVFDEMVKRRLQPTLV  188 (344)
Q Consensus       112 ~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~  188 (344)
                      .+ +-+..+|+.-..++...+  .+++++.+++.+.+..+.+..+|+--...+...|. ++++++.++++.+..+. +..
T Consensus       103 ~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~S  180 (331)
T 3dss_A          103 VN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYS  180 (331)
T ss_dssp             HC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHH
T ss_pred             hC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHH
Confidence            76 677888888777777777  48899999999998888888888888888888888 58899999998887543 666


Q ss_pred             hHHHHHHHHHhh--------------chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-----------CChHHHH
Q 038490          189 TFGTLIYGLCLE--------------LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV-----------GELSLAL  243 (344)
Q Consensus       189 ~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~  243 (344)
                      .|+.....+.+.              +.++++++.+.+.+...  +-|...|+-+-..+.+.           +.+++++
T Consensus       181 AW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~--P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el  258 (331)
T 3dss_A          181 SWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSEL  258 (331)
T ss_dssp             HHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHH
Confidence            676665555444              56777888887777653  45566665444444443           2355666


Q ss_pred             HHHHHHHHCC
Q 038490          244 GVKEEMVRDK  253 (344)
Q Consensus       244 ~~~~~~~~~~  253 (344)
                      +.++++.+..
T Consensus       259 ~~~~elle~~  268 (331)
T 3dss_A          259 ESCKELQELE  268 (331)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhhC
Confidence            6666666553

>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=98.78  E-value=4.8e-07  Score=61.30  Aligned_cols=98  Identities=12%  Similarity=0.015  Sum_probs=71.1

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      ...+..+...+...|++++|...|+...... +.+...+..+..++...|++++|...+++.....+.+...+..+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4456666777777788888888887777665 456667777777777777777777777777766666666777777777


Q ss_pred             HhhCChhHHHHHHHHHhhC
Q 038490          163 VVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            7777777777777777665

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.78  E-value=2.6e-07  Score=78.67  Aligned_cols=215  Identities=8%  Similarity=-0.089  Sum_probs=148.8

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCC------CcchhhHHHHHHHHHhcCCchHHHHHHHHhhh
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPF------RYNLLHYDLIITKLGRAKMFDEMQQILHQLKH   75 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   75 (344)
                      |.+-..-+..+.+.|++++|++.|..+....+..........      +....++..++..|...|++++|.+.+..+..
T Consensus         4 p~~~l~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~   83 (434)
T 4b4t_Q            4 PGSKLEEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTE   83 (434)
T ss_dssp             TTHHHHHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            556666678889999999999999886544322111110000      01223578899999999999999999998775


Q ss_pred             cCCCCCchh----HHHHHHHHHHhcccHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHhc
Q 038490           76 DTRIVPKEI----IFCNVIGFYGRARLLERALQMFDEMSSF----NVQM-TVKFFNTLLNPKLTCGKLDRMKELFQIMEK  146 (344)
Q Consensus        76 ~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  146 (344)
                      ..+..++..    +.+.+-..+...|+.+.|..++......    +..+ ...++..+...+...|++++|..+++.+..
T Consensus        84 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~  163 (434)
T 4b4t_Q           84 YMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLR  163 (434)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHH
Confidence            422222221    2333444455678999999999887642    2222 356788899999999999999999988754


Q ss_pred             cCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCCcC--HhhHHHHHHHHHhhchHHHHHHHHHHHH
Q 038490          147 YVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQPT--LVTFGTLIYGLCLELRVDEALKLKEDIM  214 (344)
Q Consensus       147 ~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (344)
                      ...      ....++..++..|...|++++|...+++....    +.++.  ...+..+...+...+++++|...|.+..
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          164 EFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            322      12457888899999999999999999887642    21211  2345555666778899999999988876


Q ss_pred             Hh
Q 038490          215 RV  216 (344)
Q Consensus       215 ~~  216 (344)
                      +.
T Consensus       244 ~~  245 (434)
T 4b4t_Q          244 ES  245 (434)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.77  E-value=2.8e-07  Score=65.25  Aligned_cols=99  Identities=9%  Similarity=-0.037  Sum_probs=84.9

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +...+..+...+.+.|++++|...|+.....+ +.+...|..+..++...|++++|...|++.....+.+...+..+..+
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   95 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            34556667788889999999999999998876 66788888899999999999999999999988888788888889999


Q ss_pred             HHhhCChhHHHHHHHHHhhC
Q 038490          162 CVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~  181 (344)
                      |...|++++|...|++..+.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999988765

>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=98.77  E-value=4.9e-08  Score=83.63  Aligned_cols=126  Identities=9%  Similarity=-0.038  Sum_probs=69.7

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-------------hhHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-------------EIIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      ....|..+...+.+.|++++|+..|++..+.....++             ...|..+..++.+.|++++|+..+++.++.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            4556777777888888888888888877764211110             244555555555555555555555555554


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHH
Q 038490          113 NVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAW  172 (344)
Q Consensus       113 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (344)
                      . +.+...|..+..+|...|++++|...|++..+..+.+...+..+..++.+.++.+++.
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            4 3445555555555555555555555555555554444455555555555555544443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.76  E-value=1.3e-07  Score=63.50  Aligned_cols=100  Identities=4%  Similarity=-0.033  Sum_probs=77.6

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCC--CcccHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSP--DACSYNILI  159 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~  159 (344)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+..+.  +...+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            34556667777888888888888888887765 556777778888888888888888888888776666  677777888


Q ss_pred             HHHHhh-CChhHHHHHHHHHhhCC
Q 038490          160 HGCVVS-RRLEDAWKVFDEMVKRR  182 (344)
Q Consensus       160 ~~~~~~-~~~~~a~~~~~~~~~~~  182 (344)
                      .++.+. |++++|.+.+++.....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcc
Confidence            888888 88888888888877653

>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=98.76  E-value=1.8e-07  Score=65.61  Aligned_cols=99  Identities=13%  Similarity=0.006  Sum_probs=65.5

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...|..+...+...|++++|...|+......  +.+...+..+..++...|++++|...++...+.+ +.+...+..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            56666677777777777777777777766542  3345666666667777777777777777766655 44566666666


Q ss_pred             HHHHhcCChHHHHHHHHHHhcc
Q 038490          126 NPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      .++...|++++|...|++....
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            6666777777777666666544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.73  E-value=3.4e-07  Score=66.57  Aligned_cols=99  Identities=6%  Similarity=0.011  Sum_probs=66.2

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +...+..+...+.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...|++.....+.+...|..+..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            34556666666777777777777777776654 44566666666777777777777777777666665566666666666


Q ss_pred             HHhhCChhHHHHHHHHHhhC
Q 038490          162 CVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~  181 (344)
                      |...|++++|...|++..+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            66667777776666666554

>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=98.73  E-value=1.9e-05  Score=63.78  Aligned_cols=233  Identities=7%  Similarity=-0.069  Sum_probs=164.4

Q ss_pred             ccCCch-HHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCC----------chHHHHHHHHhhhcCCCCCc
Q 038490           14 LQKDPK-LALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKM----------FDEMQQILHQLKHDTRIVPK   82 (344)
Q Consensus        14 ~~~~~~-~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~   82 (344)
                      +.|.++ +|+.+++.+...           .|-+..+|+.--.++...+.          +++++.+++.+....  +-+
T Consensus        41 ~~~e~s~eaL~~t~~~L~~-----------nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~--PKn  107 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA-----------NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKS  107 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT-----------CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTC
T ss_pred             HcCCCCHHHHHHHHHHHHH-----------CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC--CCC
Confidence            455554 799999997433           34477888877666665554          678999999988753  556


Q ss_pred             hhHHHHHHHHHHhcc--cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHhccCCCCcccHHHHH
Q 038490           83 EIIFCNVIGFYGRAR--LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK-LDRMKELFQIMEKYVSPDACSYNILI  159 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~l~  159 (344)
                      ..+|+.-.-++...+  .+++++.+++.+.+.. +.+..+|+.-..+....|. ++++++.++.+....+.+..+|+...
T Consensus       108 y~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~  186 (331)
T 3dss_A          108 YGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRS  186 (331)
T ss_dssp             HHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence            777777666666777  4899999999999987 7788899888888888888 69999999999998888999998877


Q ss_pred             HHHHhh--------------CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh-----------chHHHHHHHHHHHH
Q 038490          160 HGCVVS--------------RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE-----------LRVDEALKLKEDIM  214 (344)
Q Consensus       160 ~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~  214 (344)
                      ..+.+.              +.++++++.+.+..... +-|...|+.+-..+.+.           +.++++++.+++++
T Consensus       187 ~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~ell  265 (331)
T 3dss_A          187 CLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQ  265 (331)
T ss_dssp             HHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHH
Confidence            777665              45788999999988764 33666666444444443           56889999999988


Q ss_pred             HhcCCCCCH-HHHHHHHH---HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 038490          215 RVYNVKPDG-QVFASLIK---GLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLI  265 (344)
Q Consensus       215 ~~~~~~~~~-~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  265 (344)
                      +.   .|+. -++..++.   .....+..+++...+.++.+.++. ...-|.-+.
T Consensus       266 e~---~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~-r~~~y~d~~  316 (331)
T 3dss_A          266 EL---EPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM-RAAYLDDLR  316 (331)
T ss_dssp             HH---CTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGG-GHHHHHHHH
T ss_pred             hh---CcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcc-hhhHHHHHH
Confidence            75   4543 22222221   112345666777777777765422 333344433

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.71  E-value=4.5e-07  Score=63.59  Aligned_cols=100  Identities=7%  Similarity=-0.062  Sum_probs=75.0

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      .+...+..+...+...|++++|...|+...+.. +.+...+..+..++...|++++|...++......+.+...+..+..
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            456667777777778888888888888777765 5566777777777778888888888887777766666777777777


Q ss_pred             HHHhhCChhHHHHHHHHHhhC
Q 038490          161 GCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ++...|++++|...|++..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            777778887777777776654

>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=98.70  E-value=4.4e-07  Score=62.85  Aligned_cols=94  Identities=10%  Similarity=0.030  Sum_probs=44.8

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCc-------ccHHHH
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA-------CSYNIL  158 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~l  158 (344)
                      +..+...+.+.|++++|+..|++.++.. |.+..+|..+..+|...|++++|+..+++..+..+.+.       .+|..+
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            3444455555555555555555555443 33444555555555555555555555554443322111       123334


Q ss_pred             HHHHHhhCChhHHHHHHHHHhh
Q 038490          159 IHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      ..++...|++++|++.|++...
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4444455555555555555443

>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=98.68  E-value=2.3e-07  Score=64.30  Aligned_cols=27  Identities=11%  Similarity=0.286  Sum_probs=12.0

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhh
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      ++..+..++...|++++|...|++..+
T Consensus        81 ~~~~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           81 AYARIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            333444444444444444444444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.68  E-value=8.5e-05  Score=64.11  Aligned_cols=261  Identities=6%  Similarity=-0.031  Sum_probs=145.7

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhccc-HHHHHHHHHHHHhc-CC-CCCHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARL-LERALQMFDEMSSF-NV-QMTVKFFNTL  124 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~~l  124 (344)
                      .+|...+..+-. |+++.+..+|++....   .|+...|...+....+.+. .+....+|+..... |. +.+...|...
T Consensus        16 ~vyer~l~~~P~-~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           16 AIMEHARRLYMS-KDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHCCC-CCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            344444444443 8899999999999874   4799999988888777663 45677888887753 42 3467888888


Q ss_pred             HHHHH----hcCChHHHHHHHHHHhccCCCCc-ccHHHHHH---------------------------------------
Q 038490          125 LNPKL----TCGKLDRMKELFQIMEKYVSPDA-CSYNILIH---------------------------------------  160 (344)
Q Consensus       125 ~~~~~----~~~~~~~a~~~~~~~~~~~~~~~-~~~~~l~~---------------------------------------  160 (344)
                      +..+.    ..++.+.+..+|++....+..+. ..|.....                                       
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s  171 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWS  171 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhcc
Confidence            87654    34678889999999877422211 11111100                                       


Q ss_pred             -----HHHh--hCC---------hhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHH
Q 038490          161 -----GCVV--SRR---------LEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ  224 (344)
Q Consensus       161 -----~~~~--~~~---------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  224 (344)
                           .|..  .++         .+.+..+|+++... .+.+...|...+.-+.+.|+.+.|..++++.+..   +.+..
T Consensus       172 ~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~  247 (493)
T 2uy1_A          172 VKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMF  247 (493)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSH
T ss_pred             HHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHH
Confidence                 0000  011         12345566666554 2334556666666667788888998888887765   22221


Q ss_pred             HH----------------------------------------HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 038490          225 VF----------------------------------------ASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSL  264 (344)
Q Consensus       225 ~~----------------------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  264 (344)
                      .+                                        ...+....+.++.+.|..+|+.. .. ...+..+|...
T Consensus       248 l~~~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~  325 (493)
T 2uy1_A          248 LSLYYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYC  325 (493)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHH
Confidence            11                                        11122222344566666666666 21 11233333322


Q ss_pred             HHHHHHc-CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038490          265 ISALFKA-GRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEM  319 (344)
Q Consensus       265 ~~~~~~~-g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  319 (344)
                      +..-... ++.+.|..+|+...+.-.. +...+...+....+.|+.+.|..+|+++
T Consensus       326 A~lE~~~~~d~~~ar~ife~al~~~~~-~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          326 AFIEYYATGSRATPYNIFSSGLLKHPD-STLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2222222 2466666666666554211 2334444555555566666666666654

>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=98.66  E-value=3.4e-07  Score=63.39  Aligned_cols=113  Identities=9%  Similarity=0.003  Sum_probs=92.9

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC-------H
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT-------V  118 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~  118 (344)
                      ....|..+...+...|++++|...|++.....  +.+...+..+...+...|++++|...++...+.. +.+       .
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   79 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIA   79 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-cccchhHHHHH
Confidence            45678889999999999999999999998753  5567888899999999999999999999998764 222       7


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHH
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGC  162 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  162 (344)
                      .++..+..++...|++++|...|+......+ +......+....
T Consensus        80 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           80 KAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            7888999999999999999999999887654 555555444443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.66  E-value=8.1e-07  Score=61.49  Aligned_cols=96  Identities=6%  Similarity=0.003  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCC--CcC----HhhHHHH
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL--QPT----LVTFGTL  193 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~l  193 (344)
                      .+..+...+.+.|++++|+..|++..+..|.+...|..+..+|.+.|++++|++.+++..+.+.  .++    ..+|..+
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            4555666677777777777777777666666666677777777777777777777776654311  001    1234444


Q ss_pred             HHHHHhhchHHHHHHHHHHHHH
Q 038490          194 IYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                      ..++...|++++|+..|++.+.
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4555555666666666665554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.64  E-value=9.4e-07  Score=75.17  Aligned_cols=199  Identities=8%  Similarity=-0.025  Sum_probs=141.0

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCch---------------hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC-C
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKE---------------IIFCNVIGFYGRARLLERALQMFDEMSSFNVQ-M  116 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~  116 (344)
                      -...+.+.|++++|++.|..+.+...-..+.               ..+..+...|...|++++|.+.+..+...--. +
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            4567788999999999999988753211111               23678899999999999999999988753111 1


Q ss_pred             CH----HHHHHHHHHHHhcCChHHHHHHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC----C
Q 038490          117 TV----KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR----R  182 (344)
Q Consensus       117 ~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~  182 (344)
                      +.    .+.+.+-..+...|+.+.|..+++.......      ....++..+...|...|++++|..+++++...    +
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            11    2233344445567899999999887654321      22446778899999999999999999987643    1


Q ss_pred             CCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 038490          183 LQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-----GQVFASLIKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       183 ~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                      -.+ ....+..++..|...|++++|...+++......-.++     ...+..+...+...+++++|...|.+..+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            111 2456778889999999999999999887653221221     24556666777788999999888877754

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.62  E-value=4.7e-07  Score=62.10  Aligned_cols=97  Identities=4%  Similarity=-0.113  Sum_probs=61.5

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK  128 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  128 (344)
                      .+..+...+.+.|++++|+..|++..+..  +.+...+..+..++...|++++|+..|++..+.. +.+...+..+..++
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~   95 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   95 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            35556666667777777777777766642  3355666666666667777777777777666655 44556666666666


Q ss_pred             HhcCChHHHHHHHHHHhccC
Q 038490          129 LTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~  148 (344)
                      ...|++++|...+++..+..
T Consensus        96 ~~~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC--
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            66666777766666665543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.60  E-value=6.9e-07  Score=61.25  Aligned_cols=96  Identities=8%  Similarity=-0.118  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVV  164 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (344)
                      .+..+...+.+.|++++|+..|+...+.. +.+...|..+..++...|++++|...|++.....+.+...+..+..++..
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            35566778889999999999999999886 66889999999999999999999999999999888888899999999999


Q ss_pred             hCChhHHHHHHHHHhhC
Q 038490          165 SRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~~  181 (344)
                      .|++++|...+++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999998865

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=1.9e-06  Score=61.10  Aligned_cols=99  Identities=10%  Similarity=-0.061  Sum_probs=77.8

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT----VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYN  156 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  156 (344)
                      .+...+..+...+...|++++|.+.|++..+..  |+    ...+..+..++...|++++|...+++.....+.+...+.
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            355677778888888899999999998888764  44    567777788888888888888888887776666677777


Q ss_pred             HHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          157 ILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      .+..++...|++++|...|++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            7788888888888888888887765

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.59  E-value=2.1e-06  Score=59.31  Aligned_cols=97  Identities=11%  Similarity=-0.024  Sum_probs=62.5

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch---hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC---HHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE---IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT---VKFFNT  123 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~  123 (344)
                      +..+...+...|++++|...|+.+.+..  +.+.   ..+..+..++...|++++|...|+.+.+.. +.+   ...+..
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~   81 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHH
Confidence            3445666777777777777777776642  2222   356666677777777777777777776654 333   455666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhccCC
Q 038490          124 LLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus       124 l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      +..++...|++++|...|+.+....+
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~p  107 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQYP  107 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC
Confidence            66677777777777777777665544

>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=98.59  E-value=6.2e-08  Score=83.39  Aligned_cols=124  Identities=14%  Similarity=0.047  Sum_probs=102.3

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  129 (344)
                      +..+...+.+.|++++|++.|++..+..  +.+...+..+..++.+.|++++|++.+++..+.. +.+...+..+..+|.
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~   85 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   85 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3334455678899999999999998852  4457889999999999999999999999999986 667889999999999


Q ss_pred             hcCChHHHHHHHHHHhccCCCCcccHHHHHHH--HHhhCChhHHHHHHH
Q 038490          130 TCGKLDRMKELFQIMEKYVSPDACSYNILIHG--CVVSRRLEDAWKVFD  176 (344)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  176 (344)
                      ..|++++|...+++..+..+.+...+..+..+  +.+.|++++|++.++
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            99999999999999988877666777777666  888999999999998

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.55  E-value=9.2e-08  Score=78.52  Aligned_cols=149  Identities=7%  Similarity=-0.081  Sum_probs=75.2

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ....+..+...+.+.|++++|...|++....   .|+...       +...++.+++...+.          ..+|..+.
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla  237 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIA  237 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHHH----------HHHHHHHH
Confidence            4556778888888999999999999998764   344331       222333333332221          12566666


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHH-HHhhchHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYG-LCLELRVD  204 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~  204 (344)
                      .++.+.|++++|...+++.....+.+...|..+..+|...|++++|...|++..+.... +...+..+... ....+..+
T Consensus       238 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          238 ACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHH
Confidence            67777777777777777776666566666777777777777777777777776554211 22333333322 22344556


Q ss_pred             HHHHHHHHHHH
Q 038490          205 EALKLKEDIMR  215 (344)
Q Consensus       205 ~a~~~~~~~~~  215 (344)
                      .+...|..++.
T Consensus       317 ~a~~~~~~~l~  327 (338)
T 2if4_A          317 KQKEMYKGIFK  327 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHHhhC
Confidence            66666666554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.50  E-value=3.6e-06  Score=58.12  Aligned_cols=93  Identities=12%  Similarity=-0.011  Sum_probs=54.3

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHhccCCCC---cccHHHHHHH
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTV---KFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPD---ACSYNILIHG  161 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~  161 (344)
                      .+...+...|++++|...|+.+.+.. +.+.   ..+..+..++...|++++|...++.+....+.+   ..++..+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            34455556666666666666666543 2222   355556666666666666666666665554433   3445555566


Q ss_pred             HHhhCChhHHHHHHHHHhhC
Q 038490          162 CVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~  181 (344)
                      +.+.|++++|...|+++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666665554

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.50  E-value=1.7e-06  Score=71.86  Aligned_cols=138  Identities=5%  Similarity=-0.095  Sum_probs=71.2

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      ..|..+...+.+.|++++|++.|++..+..   +...          ....       .+...... +.+..+|..+..+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~~----------~~~~-------~~~~~~~~-~~~~~~~~nla~~  282 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGSR----------AAAE-------DADGAKLQ-PVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHHH----------HHSC-------HHHHGGGH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcCc----------cccC-------hHHHHHHH-HHHHHHHHHHHHH
Confidence            346666777777777777777777766520   0000          0000       00000011 2233455555555


Q ss_pred             HHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHH
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEAL  207 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  207 (344)
                      |.+.|++++|...+++..+..+.+...+..+..+|...|++++|...|++..+.. +.+...+..+...+...++.+++.
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666655555555555566666666666666666666655542 113444444444555555555444

>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=98.48  E-value=4.1e-06  Score=71.77  Aligned_cols=144  Identities=11%  Similarity=0.032  Sum_probs=102.7

Q ss_pred             CCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCC---------------HHHHHHHH
Q 038490           61 KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMT---------------VKFFNTLL  125 (344)
Q Consensus        61 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~  125 (344)
                      +++++|.+.|+......  +-....+..+...+.+.|++++|+..|++.++.. +.+               ..+|..+.
T Consensus       248 ~~~~~A~~~~~~~~~~~--~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla  324 (457)
T 1kt0_A          248 KSFEKAKESWEMDTKEK--LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLA  324 (457)
T ss_dssp             EEEECCCCGGGSCHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCcchhhcCHHHH--HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHH
Confidence            44555655554433321  1234567778888889999999999999988754 223               57788888


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDE  205 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (344)
                      .+|.+.|++++|...+++.....+.+...|..+..+|...|++++|...|++..+... -+...+..+..++.+.++.++
T Consensus       325 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~  403 (457)
T 1kt0_A          325 MCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNE  403 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888888887777778888888888888888888888888877632 244566666677777777776


Q ss_pred             HHH
Q 038490          206 ALK  208 (344)
Q Consensus       206 a~~  208 (344)
                      +.+
T Consensus       404 a~~  406 (457)
T 1kt0_A          404 RDR  406 (457)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.47  E-value=2e-06  Score=61.87  Aligned_cols=25  Identities=8%  Similarity=0.066  Sum_probs=11.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHh
Q 038490          296 YNALISGFCKEEDFEAAFTILDEMG  320 (344)
Q Consensus       296 ~~~l~~~~~~~~~~~~a~~~~~~~~  320 (344)
                      +..+...+...|++++|...+++..
T Consensus       132 ~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          132 CWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3334444444444444444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.47  E-value=2.7e-06  Score=61.18  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=11.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 038490          226 FASLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       226 ~~~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                      +..+...+...|++++|.+.+++..
T Consensus       132 ~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          132 CWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3344444444455555544444443

>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=98.47  E-value=7.8e-07  Score=76.58  Aligned_cols=122  Identities=10%  Similarity=0.017  Sum_probs=99.3

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .+...+.+.|++++|++.|++..+.. +.+..++..+..++.+.|++++|...+++..+..+.+..++..+..+|...|+
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            34455678899999999999999886 66789999999999999999999999999999888888999999999999999


Q ss_pred             hhHHHHHHHHHhhCCCCcCHhhHHHHHHH--HHhhchHHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQPTLVTFGTLIYG--LCLELRVDEALKLKE  211 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  211 (344)
                      +++|.+.|++..+.... +...+..+..+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999876322 33445455444  788899999999988

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.45  E-value=2e-06  Score=62.33  Aligned_cols=103  Identities=13%  Similarity=0.041  Sum_probs=67.0

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcC------C----------CCCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDT------R----------IVPKEIIFCNVIGFYGRARLLERALQMFDEM  109 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  109 (344)
                      ....+......+.+.|++++|+..|.+.....      .          .+.+...|..+..+|.+.|++++|+..++..
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            45678888889999999999999998877630      0          0112245555666666666666666666666


Q ss_pred             HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC
Q 038490          110 SSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus       110 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      ++.+ +.+...|..+..++...|++++|...|++.....|
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p  128 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHP  128 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCC
Confidence            6654 44555666666666666666666666666655443

>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=4.4e-06  Score=69.35  Aligned_cols=137  Identities=10%  Similarity=-0.046  Sum_probs=97.0

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      +..+...+.+.|++++|++.|++.++.-  +...          ....       .+......+.+..+|..+..+|.+.
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~-------~~~~~~~~~~~~~~~~nla~~~~~~  286 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAE-------DADGAKLQPVALSCVLNIGACKLKM  286 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSC-------HHHHGGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccC-------hHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4555666666777777777776665421  0000          0000       1111112234567889999999999


Q ss_pred             CChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 038490          166 RRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALG  244 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  244 (344)
                      |++++|+..+++..+.. +.+...+..+..++...|++++|...|+++++..  +.+...+..+..++...++.+++.+
T Consensus       287 g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~--P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          287 SDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999874 3367788888899999999999999999988763  4467788888888888888877654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.43  E-value=2e-06  Score=58.49  Aligned_cols=86  Identities=6%  Similarity=-0.035  Sum_probs=44.6

Q ss_pred             hCChhHHHHHHHHHhhCC--CCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH
Q 038490          165 SRRLEDAWKVFDEMVKRR--LQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLA  242 (344)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  242 (344)
                      .|++++|+..|++..+.+  -+.+...+..+..++...|++++|+..++++++..  +.+...+..+..++...|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCHHHH
Confidence            355566666666655542  12233445555555556666666666666655442  33355555555566666666666


Q ss_pred             HHHHHHHHHC
Q 038490          243 LGVKEEMVRD  252 (344)
Q Consensus       243 ~~~~~~~~~~  252 (344)
                      ...+++....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666655554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.43  E-value=3.9e-06  Score=60.72  Aligned_cols=99  Identities=8%  Similarity=0.043  Sum_probs=74.2

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhc--------C---------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSF--------N---------VQMTVKFFNTLLNPKLTCGKLDRMKELFQIME  145 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  145 (344)
                      ...+......+.+.|++++|+..|...+..        .         -+.+..+|..+..+|.+.|++++|...++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            455677788888999999999999998865        1         02233567777777777788888888777777


Q ss_pred             ccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          146 KYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       146 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ...+.+...|..+..+|...|++++|...|++....
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            776667777777777777778888887777777665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.42  E-value=8.3e-07  Score=60.42  Aligned_cols=89  Identities=6%  Similarity=-0.122  Sum_probs=57.5

Q ss_pred             cCCchHHHHHHHHhhhcCC-CCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 038490           60 AKMFDEMQQILHQLKHDTR-IVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMK  138 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  138 (344)
                      .|++++|+..|++..+... -+.+...+..+..++...|++++|+..|++..+.. +.+..++..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            5677777777777765310 02234566667777777777777777777777765 555667777777777777777777


Q ss_pred             HHHHHHhccCC
Q 038490          139 ELFQIMEKYVS  149 (344)
Q Consensus       139 ~~~~~~~~~~~  149 (344)
                      ..+++.....+
T Consensus        82 ~~~~~al~~~p   92 (117)
T 3k9i_A           82 ELLLKIIAETS   92 (117)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhCC
Confidence            77777665544

>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=98.37  E-value=8.4e-05  Score=65.25  Aligned_cols=175  Identities=7%  Similarity=-0.034  Sum_probs=139.1

Q ss_pred             CCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhccc----------HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 038490           61 KMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARL----------LERALQMFDEMSSFNVQMTVKFFNTLLNPKLT  130 (344)
Q Consensus        61 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  130 (344)
                      ...++|++.++.+....  +-+..+|+.--.++...++          ++++++.++.+.+.+ +-+..+|..-..++.+
T Consensus        43 ~~~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           43 ELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            44567899999998853  3445667766566666666          899999999999987 7788899988888888


Q ss_pred             cC--ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC-ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh-------
Q 038490          131 CG--KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSR-RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE-------  200 (344)
Q Consensus       131 ~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  200 (344)
                      .+  +++++...++++.+..+.+..+|+.-...+.+.| .++++++.++++.+.... +...|+.....+.+.       
T Consensus       120 l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          120 LPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccc
Confidence            89  7799999999999999999999999888888889 899999999999887544 677777766665553       


Q ss_pred             -------chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 038490          201 -------LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSL  241 (344)
Q Consensus       201 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  241 (344)
                             +.++++++.+.+++...  +.+...|.-+-..+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~--P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHC--SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhC--CCCccHHHHHHHHHhcCCCccc
Confidence                   67899999999988764  5567778777777777666443

>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=98.30  E-value=5.4e-05  Score=66.47  Aligned_cols=175  Identities=7%  Similarity=-0.032  Sum_probs=140.2

Q ss_pred             ccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhC
Q 038490           97 RLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK----------LDRMKELFQIMEKYVSPDACSYNILIHGCVVSR  166 (344)
Q Consensus        97 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (344)
                      ...++|++.++.+...+ +-+..+|+.--.++...|+          ++++...++.+....+.+..+|+.-...+.+.+
T Consensus        43 ~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           43 ELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcc
Confidence            34478899999999887 6667788877766766666          899999999999988889999999888889999


Q ss_pred             --ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhc-hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-------
Q 038490          167 --RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLEL-RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV-------  236 (344)
Q Consensus       167 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  236 (344)
                        +++++++.++++.+...+ +...|+.-...+.+.| .++++++.+.++++..  +-+...|+.....+.+.       
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhccccccc
Confidence              679999999999988544 6777777777777788 8899999998877643  55677787776666653       


Q ss_pred             -------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCc
Q 038490          237 -------GELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       237 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                             +.++++.+.+++.....+. |...|..+-..+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence                   4578899999999887655 88888888888877777554

>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=98.24  E-value=1.9e-05  Score=56.05  Aligned_cols=60  Identities=12%  Similarity=-0.021  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhcc-------CCCCcccH----HHHHHHHHhhCChhHHHHHHHHHh
Q 038490          120 FFNTLLNPKLTCGKLDRMKELFQIMEKY-------VSPDACSY----NILIHGCVVSRRLEDAWKVFDEMV  179 (344)
Q Consensus       120 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~  179 (344)
                      .|..+..++.+.|++++|+..+++....       .+.+...|    .....++...|++++|+..|++..
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            4444445555555555555555444443       33344444    455555555555555555555544

>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=98.24  E-value=7.5e-06  Score=58.07  Aligned_cols=104  Identities=12%  Similarity=-0.004  Sum_probs=85.8

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-------------hhHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-------------EIIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      ....+......+.+.|++++|+..|++..+.   .|+             ...|..+..++.+.|++++|+..+++.++.
T Consensus        10 ~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l   86 (159)
T 2hr2_A           10 GAYLALSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY   86 (159)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3455677788899999999999999998875   233             238899999999999999999999999986


Q ss_pred             -------CCCCCHHHH----HHHHHHHHhcCChHHHHHHHHHHhccCCCCcc
Q 038490          113 -------NVQMTVKFF----NTLLNPKLTCGKLDRMKELFQIMEKYVSPDAC  153 (344)
Q Consensus       113 -------~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  153 (344)
                             + +-+...|    .....++...|++++|+..|++..+..+.+..
T Consensus        87 ~n~~~e~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~  137 (159)
T 2hr2_A           87 FNRRGELN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKG  137 (159)
T ss_dssp             HHHHCCTT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCS
T ss_pred             hhccccCC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHH
Confidence                   5 4456678    89999999999999999999998776554433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.23  E-value=2.2e-06  Score=57.47  Aligned_cols=63  Identities=13%  Similarity=0.040  Sum_probs=29.0

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF  112 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  112 (344)
                      ..|..+...+...|++++|++.|++..+..  +.+...+..+..++...|++++|++.+++..+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            344444444445555555555554444431  223344444444444444555554444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.20  E-value=5.8e-06  Score=67.79  Aligned_cols=147  Identities=7%  Similarity=0.002  Sum_probs=70.3

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGL  233 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  233 (344)
                      .+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+.           ...|..+..++
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~~  240 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHHH
Confidence            3555666677777888888877776654  222221       223334443332221           12566667777


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHH-HhccCCHHHH
Q 038490          234 CAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISG-FCKEEDFEAA  312 (344)
Q Consensus       234 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~~~~~~a  312 (344)
                      .+.|++++|+..+++.++.... +...|..+..+|...|++++|...|++..+.... +...+..+... ....+..+.+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777766433 6677777777777777777777777777654322 33444444433 2334556667


Q ss_pred             HHHHHHHhhC
Q 038490          313 FTILDEMGDK  322 (344)
Q Consensus       313 ~~~~~~~~~~  322 (344)
                      ..+|.+|...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            7777777643

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.15  E-value=2e-05  Score=53.12  Aligned_cols=79  Identities=9%  Similarity=0.045  Sum_probs=44.7

Q ss_pred             HHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490           65 EMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIM  144 (344)
Q Consensus        65 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  144 (344)
                      +|++.|++..+.  .+.+...+..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...|++.
T Consensus         3 ~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345555555543  13344555556666666666666666666666554 444555556666666666666666666555


Q ss_pred             hc
Q 038490          145 EK  146 (344)
Q Consensus       145 ~~  146 (344)
                      ..
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.14  E-value=3.6e-05  Score=51.87  Aligned_cols=80  Identities=8%  Similarity=-0.013  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhh
Q 038490          101 RALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       101 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      .|+..|+...+.. +.+...+..+..++...|++++|...|++.....+.+...|..+..+|...|++++|...|++..+
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4566777777665 556778888888888888888888888888877777777888888888888888888888888765


Q ss_pred             C
Q 038490          181 R  181 (344)
Q Consensus       181 ~  181 (344)
                      .
T Consensus        82 ~   82 (115)
T 2kat_A           82 A   82 (115)
T ss_dssp             H
T ss_pred             h
Confidence            4

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.12  E-value=4.3e-05  Score=48.80  Aligned_cols=81  Identities=10%  Similarity=0.051  Sum_probs=44.9

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...|..+...+...|++++|...+++.....  +.+...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~   84 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLG   84 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            34455556666666666666666666665531  2344555555666666666666666666665543 33444444444


Q ss_pred             HHHH
Q 038490          126 NPKL  129 (344)
Q Consensus       126 ~~~~  129 (344)
                      .++.
T Consensus        85 ~~~~   88 (91)
T 1na3_A           85 NAKQ   88 (91)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.08  E-value=6.1e-05  Score=48.03  Aligned_cols=84  Identities=13%  Similarity=0.097  Sum_probs=72.7

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++.....+.+...+..+..+
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~   86 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            35677888899999999999999999999876 56788899999999999999999999999988877777888888777


Q ss_pred             HHhhC
Q 038490          162 CVVSR  166 (344)
Q Consensus       162 ~~~~~  166 (344)
                      +.+.|
T Consensus        87 ~~~~g   91 (91)
T 1na3_A           87 KQKQG   91 (91)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            76554

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.07  E-value=1.4e-05  Score=56.62  Aligned_cols=99  Identities=10%  Similarity=0.035  Sum_probs=71.0

Q ss_pred             HHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh----------HHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 038490          197 LCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL----------SLALGVKEEMVRDKIEMDAGIYSSLIS  266 (344)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~  266 (344)
                      ..+.+.+++|.+.++..++..  +.+...|..+..++...+++          ++|+..|++.++.++. +...|..+..
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~   88 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHH
Confidence            356678888888888877764  55677787777777777664          4888888888887655 6778888888


Q ss_pred             HHHHcC-----------CcCcHHHHHHHHHHcCCCCChhhHHHHH
Q 038490          267 ALFKAG-----------RKNEFPAILKEMKERGCKPNSVTYNALI  300 (344)
Q Consensus       267 ~~~~~g-----------~~~~a~~~~~~~~~~~~~p~~~~~~~l~  300 (344)
                      +|...|           ++++|+..|++..+.  .|+...|...+
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al  131 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            887764           677777777777775  45555444433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.07  E-value=6.6e-05  Score=49.96  Aligned_cols=94  Identities=12%  Similarity=0.015  Sum_probs=61.3

Q ss_pred             CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC------HH
Q 038490          186 TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD------AG  259 (344)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~  259 (344)
                      +...+..+...+...|++++|+..+++.++..  +.+...+..+..++.+.|++++|...+++..+..+. +      ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHH
Confidence            34455566667777777777777777776653  345666777777777777777777777777765433 2      44


Q ss_pred             HHHHHHHHHHHcCCcCcHHHHHH
Q 038490          260 IYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       260 ~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      .+..+..++...|+.+.|...++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHH
Confidence            55556666666666666554443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.07  E-value=2.4e-05  Score=67.11  Aligned_cols=124  Identities=10%  Similarity=0.052  Sum_probs=53.4

Q ss_pred             HhhCChhHHHHHHHHHhhC-----C-CCc-CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhc----C-CCCC-HHHHHHH
Q 038490          163 VVSRRLEDAWKVFDEMVKR-----R-LQP-TLVTFGTLIYGLCLELRVDEALKLKEDIMRVY----N-VKPD-GQVFASL  229 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~-~~~~~~l  229 (344)
                      ...|++++|+.++++.++.     | -.| ...+++.+..+|...|++++|..++++.+.-.    | -.|+ ..+++.|
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  399 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRA  399 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3455555555555554331     0 011 12344555555555555555555555443211    1 1111 2344555


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH-----CCCC--CCHHHHHHHHHHHHHcCCcCcHHHHHHHHHH
Q 038490          230 IKGLCAVGELSLALGVKEEMVR-----DKIE--MDAGIYSSLISALFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~-----~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  286 (344)
                      ...|...|++++|+.++++..+     .|..  ....+.+.+..++...+.+++|+.++.++++
T Consensus       400 a~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          400 GLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555554432     1211  0112233344444444455555555554443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.05  E-value=2.2e-05  Score=55.54  Aligned_cols=94  Identities=13%  Similarity=0.049  Sum_probs=49.3

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK----------LDRMKELFQIMEKYVSPDACSYNILIHGCVV  164 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (344)
                      +.+.+++|.+.++...+.. +.+...|..+..++...++          +++|+..|++..+..+....+|..+..+|..
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            3444455555555555444 4444455544444444443          3356666666555555555556666666555


Q ss_pred             hC-----------ChhHHHHHHHHHhhCCCCcCHhhHH
Q 038490          165 SR-----------RLEDAWKVFDEMVKRRLQPTLVTFG  191 (344)
Q Consensus       165 ~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~  191 (344)
                      .|           ++++|++.|++..+.  .|+...|.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~  128 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYL  128 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHH
Confidence            43           566666666666554  34444443

>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=98.05  E-value=0.00023  Score=49.72  Aligned_cols=110  Identities=7%  Similarity=-0.113  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCcCcH
Q 038490          202 RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFK----AGRKNEF  277 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a  277 (344)
                      ++++|+..|++..+. + .+...    +...|...+..++|.+.|++..+.|   +...+..|...|..    .+++++|
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            445555555554432 1 22221    3334444444555555555555543   44455555555555    4555555


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHhhCC
Q 038490          278 PAILKEMKERGCKPNSVTYNALISGFCK----EEDFEAAFTILDEMGDKG  323 (344)
Q Consensus       278 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  323 (344)
                      ...|++..+.|   +...+..|...|..    .++.++|..+|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            55555555543   34445555555555    556666666666665554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.05  E-value=6.2e-05  Score=64.57  Aligned_cols=87  Identities=5%  Similarity=-0.118  Sum_probs=42.9

Q ss_pred             HHhcccHHHHHHHHHHHHhc-----C--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc-----CC--C-CcccHHH
Q 038490           93 YGRARLLERALQMFDEMSSF-----N--VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY-----VS--P-DACSYNI  157 (344)
Q Consensus        93 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--~-~~~~~~~  157 (344)
                      +..+|++++|+.++++.++.     |  -+....+++.|..+|...|++++|..++++....     |+  | ...+++.
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            33556666666666555431     1  0112345555556666666666665555544321     11  1 1234455


Q ss_pred             HHHHHHhhCChhHHHHHHHHHh
Q 038490          158 LIHGCVVSRRLEDAWKVFDEMV  179 (344)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~  179 (344)
                      |...|...|++++|+.++++..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555555555555555543

>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=98.00  E-value=0.00035  Score=48.80  Aligned_cols=15  Identities=0%  Similarity=-0.017  Sum_probs=5.8

Q ss_pred             CCcCcHHHHHHHHHH
Q 038490          272 GRKNEFPAILKEMKE  286 (344)
Q Consensus       272 g~~~~a~~~~~~~~~  286 (344)
                      ++.++|...|++..+
T Consensus       111 ~d~~~A~~~~~~Aa~  125 (138)
T 1klx_A          111 KNEKQAVKTFEKACR  125 (138)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            333333333333333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.97  E-value=5e-05  Score=49.74  Aligned_cols=64  Identities=6%  Similarity=0.039  Sum_probs=34.3

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSS  111 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  111 (344)
                      +..+|..+..++.+.|++++|+..|++..+..  +.+...|..+..+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44555555555555555555555555555432  22344555555555555555555555555543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.83  E-value=0.0001  Score=48.18  Aligned_cols=63  Identities=16%  Similarity=0.066  Sum_probs=33.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHh
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMV  179 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (344)
                      +...+..+..++...|++++|...|++..+..+.+...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344555555555555555555555555555544444555555555555555555555555543

>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=97.71  E-value=0.0028  Score=51.58  Aligned_cols=73  Identities=11%  Similarity=-0.018  Sum_probs=44.4

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhH
Q 038490          220 KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTY  296 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  296 (344)
                      +.+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++....  .|...+|
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            4455666665555555566666666666666654  45555656666666666666666666666655  3444444

>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=97.58  E-value=0.0043  Score=50.48  Aligned_cols=133  Identities=8%  Similarity=0.019  Sum_probs=61.8

Q ss_pred             CCchhHHHHHHHHHHh-----cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---C--ChHHH---HHHHHHHh-
Q 038490           80 VPKEIIFCNVIGFYGR-----ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC---G--KLDRM---KELFQIME-  145 (344)
Q Consensus        80 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~--~~~~a---~~~~~~~~-  145 (344)
                      +.+...|...+++...     ..+..+|..+|++..+.. |-....+..+..+|...   +  .....   ...++... 
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            4556666666655432     234577888888888775 44455555544444310   0  00000   01111110 


Q ss_pred             -ccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHH
Q 038490          146 -KYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       146 -~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                       ...+.+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|...+.+.++
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence             1122344444444444444455555555555555442  3444444444444455555555555555444

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.51  E-value=0.0037  Score=48.80  Aligned_cols=97  Identities=19%  Similarity=0.168  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCcC
Q 038490          202 RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV-----GELSLALGVKEEMVRDKIEMDAGIYSSLISALFKA-GRKN  275 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~  275 (344)
                      ....|...++++++...--.+...|..+...|.+.     |+.++|.+.|++.++.++.-+..++......++.. |+.+
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            45667777777666531111356777777777774     88888888888888875543477777777777774 8888


Q ss_pred             cHHHHHHHHHHcCCC--CChhhHHH
Q 038490          276 EFPAILKEMKERGCK--PNSVTYNA  298 (344)
Q Consensus       276 ~a~~~~~~~~~~~~~--p~~~~~~~  298 (344)
                      ++.+.+++.......  |+....+.
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCChhHHHH
Confidence            888888888877655  55444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.49  E-value=0.0077  Score=55.49  Aligned_cols=45  Identities=16%  Similarity=0.208  Sum_probs=22.8

Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHH
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEM  178 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (344)
                      ...|+++.|.++.+.+     .+...|..+...+.+.|+++.|++.|.++
T Consensus       663 l~~~~~~~A~~~~~~~-----~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE-----SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh-----CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3445555555544322     23445555555555555555555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.42  E-value=0.00033  Score=45.46  Aligned_cols=59  Identities=14%  Similarity=0.125  Sum_probs=38.1

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchh-HHHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEI-IFCNVIGFYGRARLLERALQMFDEMSSFN  113 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  113 (344)
                      ....+.+.|++++|...|++..+..  +.+.. .+..+..++...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3455666677777777777766642  33445 66666667777777777777777776654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.0028  Score=40.90  Aligned_cols=66  Identities=14%  Similarity=0.059  Sum_probs=51.7

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccH
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMTVK-FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSY  155 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  155 (344)
                      ....+...|++++|.+.|+...+.. +.+.. .+..+..++...|++++|...|++.....+.+...+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            4556778888999999998888875 55667 888888888888999999999988887766555444

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.24  E-value=0.0077  Score=38.47  Aligned_cols=20  Identities=5%  Similarity=-0.164  Sum_probs=7.6

Q ss_pred             HHHHhcccHHHHHHHHHHHH
Q 038490           91 GFYGRARLLERALQMFDEMS  110 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~  110 (344)
                      ..+.+.|++++|+..|+.+.
T Consensus        51 ~~~~~~g~y~~Ai~~w~~~l   70 (93)
T 3bee_A           51 NDHFISFRFQEAIDTWVLLL   70 (93)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            33333333333333333333

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.14  E-value=0.0068  Score=38.74  Aligned_cols=66  Identities=11%  Similarity=0.134  Sum_probs=35.7

Q ss_pred             CCHHHHHHHHHHHHhcCC---hHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          116 MTVKFFNTLLNPKLTCGK---LDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       116 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      .+...+..+..++...++   .++|..++++.....+.+..+...+...+.+.|++++|+..|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344445555554443333   455555555555555555555555555555566666666666655554

>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=97.11  E-value=0.0012  Score=55.78  Aligned_cols=87  Identities=10%  Similarity=-0.094  Sum_probs=65.3

Q ss_pred             hcCChHHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc-----CC-CCC-hhhHHHHH
Q 038490          235 AVGELSLALGVKEEMVRD---KIEM----DAGIYSSLISALFKAGRKNEFPAILKEMKER-----GC-KPN-SVTYNALI  300 (344)
Q Consensus       235 ~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~-~~~~~~l~  300 (344)
                      ..|++++|+.++++.++.   -..|    ...+++.|..+|...|++++|+.++++..+.     |. .|+ ..+++.|.
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            457889999998887652   1112    2467888999999999999999999887543     32 222 34588888


Q ss_pred             HHHhccCCHHHHHHHHHHHhh
Q 038490          301 SGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       301 ~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998863

>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=97.10  E-value=0.0032  Score=53.14  Aligned_cols=87  Identities=10%  Similarity=-0.001  Sum_probs=43.3

Q ss_pred             hhchHHHHHHHHHHHHHhc--CCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CCC-C-CHHHHHHHH
Q 038490          199 LELRVDEALKLKEDIMRVY--NVKP----DGQVFASLIKGLCAVGELSLALGVKEEMVRD-----KIE-M-DAGIYSSLI  265 (344)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~  265 (344)
                      +.|++++|+.++++.+...  -+.|    ...+++.+...|...|++++|+.++++.+..     |.. | ...+++.|.
T Consensus       299 ~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa  378 (429)
T 3qwp_A          299 AHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVG  378 (429)
T ss_dssp             HTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHH
Confidence            3455555555555554321  1111    1334555555566666666666655555421     111 1 223455556


Q ss_pred             HHHHHcCCcCcHHHHHHHHH
Q 038490          266 SALFKAGRKNEFPAILKEMK  285 (344)
Q Consensus       266 ~~~~~~g~~~~a~~~~~~~~  285 (344)
                      ..|...|++++|+.++++..
T Consensus       379 ~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          379 KLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHH
Confidence            66666666666666665543

>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=97.09  E-value=0.0025  Score=53.79  Aligned_cols=86  Identities=12%  Similarity=0.011  Sum_probs=44.4

Q ss_pred             chHHHHHHHHHHHHHhc--CCCC---C-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CCC-C-CHHHHHHHHHH
Q 038490          201 LRVDEALKLKEDIMRVY--NVKP---D-GQVFASLIKGLCAVGELSLALGVKEEMVRD-----KIE-M-DAGIYSSLISA  267 (344)
Q Consensus       201 ~~~~~a~~~~~~~~~~~--~~~~---~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~~~  267 (344)
                      |++++|+.++++.++..  -+.|   + ..+++.+..+|...|++++|+.++++.++.     |.. | ...+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            35555555555544321  1112   1 345566666666666666666666655431     211 1 23345666666


Q ss_pred             HHHcCCcCcHHHHHHHHHH
Q 038490          268 LFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       268 ~~~~g~~~~a~~~~~~~~~  286 (344)
                      |...|++++|+.++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            6666666666666665543

>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=97.08  E-value=0.0031  Score=53.28  Aligned_cols=92  Identities=15%  Similarity=0.042  Sum_probs=71.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCC---CCC----CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc-----CC-CCC-hhh
Q 038490          230 IKGLCAVGELSLALGVKEEMVRDK---IEM----DAGIYSSLISALFKAGRKNEFPAILKEMKER-----GC-KPN-SVT  295 (344)
Q Consensus       230 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~-~~~  295 (344)
                      +..+.+.|++++|+.++++..+..   ..|    ...+++.|..+|...|++++|+.++++....     |. .|+ ..+
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            445667899999999999998641   112    2457889999999999999999999987643     21 222 345


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          296 YNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       296 ~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      ++.|...|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88899999999999999999998863

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.96  E-value=0.042  Score=39.47  Aligned_cols=102  Identities=13%  Similarity=0.131  Sum_probs=59.9

Q ss_pred             HHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490           55 TKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKL  134 (344)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  134 (344)
                      ....+.|+++.|.++.+.+       .+...|..|.......|+++-|++.|.....         +..+.-.|.-.|+.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            3455667777777766554       1455677777777777777777777766553         34455555556666


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHH
Q 038490          135 DRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDE  177 (344)
Q Consensus       135 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (344)
                      +....+-+.....     .-++.....+...|+++++.++|.+
T Consensus        77 e~L~kla~iA~~~-----g~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           77 NKLSKMQNIAQTR-----EDFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHHHT-----TCHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC-----ccHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555444443322     2345555556666777777776644

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.96  E-value=0.015  Score=37.99  Aligned_cols=63  Identities=16%  Similarity=0.035  Sum_probs=31.7

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHHHHHhcC-----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          190 FGTLIYGLCLELRVDEALKLKEDIMRVYN-----VKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +..+...+.+.+++..|...++.+++...     -.+...++..+..++.+.|+++.|...+++..+.
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34445555555555555555555544321     1122344555555555555555555555555544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.91  E-value=0.012  Score=38.47  Aligned_cols=68  Identities=7%  Similarity=-0.055  Sum_probs=47.1

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcC-----CCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcC
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDT-----RIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFN  113 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  113 (344)
                      +..-+..+...+.+.|+++.|..+|+...+..     +-.+...++..+..++.+.|+++.|...++++.+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            44556677788888888888888887766531     012345667777777777888888888877777654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.91  E-value=2.8e-06  Score=70.47  Aligned_cols=242  Identities=12%  Similarity=0.109  Sum_probs=121.4

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK  128 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  128 (344)
                      +|..+..+..+.+++.+|++-|-+       .-|+..|..++....+.|.+++-.+.+...++..  .++.+=+.|+-+|
T Consensus        56 VWs~LgkAqL~~~~v~eAIdsyIk-------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ay  126 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDSYIK-------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL  126 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTSSCC-------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHH
T ss_pred             HHHHHHHHHHccCchHHHHHHHHh-------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHH
Confidence            455556666666655555543311       1233445556666666666666555555444332  2222334555566


Q ss_pred             HhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC--------------------CCCcCHh
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR--------------------RLQPTLV  188 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~~  188 (344)
                      ++.++..+.++++      ..|+..-...+.+-|...|.++.|.-+|..+...                    .-.-++.
T Consensus       127 Ak~~rL~elEefl------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          127 AKTNRLAELEEFI------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             HTSCSSSTTTSTT------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             HhhCcHHHHHHHH------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            6655543322211      0144444444555555555555444444332110                    0012566


Q ss_pred             hHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 038490          189 TFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISAL  268 (344)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  268 (344)
                      ||..+-.+|...+.+.-|-..--.++-.    ++  -...++..|-..|-+++.+.+++.-.... .....+|+-|.-.|
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniIvh----ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILY  273 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIVVH----AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILY  273 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHHCC----SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhccc----HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHH
Confidence            7777777777777766554433332211    11  12234556677777887777777766432 34677777777777


Q ss_pred             HHcCCcCcHHHHHHHHHHc-CCC------CChhhHHHHHHHHhccCCHHHHH
Q 038490          269 FKAGRKNEFPAILKEMKER-GCK------PNSVTYNALISGFCKEEDFEAAF  313 (344)
Q Consensus       269 ~~~g~~~~a~~~~~~~~~~-~~~------p~~~~~~~l~~~~~~~~~~~~a~  313 (344)
                      ++- ++++..+.++..-.+ +++      -....|..++-.|.+-.+++.|.
T Consensus       274 sKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          274 SKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             Hhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            765 355554444432111 110      02334555666666666665543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.89  E-value=0.022  Score=39.46  Aligned_cols=115  Identities=11%  Similarity=0.034  Sum_probs=79.5

Q ss_pred             CcchhhHHHHHHHHHhcCCc------hHHHHHHHHhhhcCCCCCchhH-HHHHHH------HHHhcccHHHHHHHHHHHH
Q 038490           44 RYNLLHYDLIITKLGRAKMF------DEMQQILHQLKHDTRIVPKEII-FCNVIG------FYGRARLLERALQMFDEMS  110 (344)
Q Consensus        44 ~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~~-~~~l~~------~~~~~~~~~~a~~~~~~~~  110 (344)
                      +.|..+|-..+...-+.|+.      ++.+++|++....  ++|+... +..-+.      .+...++.++|.++|+.++
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~--~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA--LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH--SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc--CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            44888999999999888999      8999999998875  6775421 111111      1123477888888888887


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490          111 SFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus       111 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      +.+ +--..+|....+.-.+.|++..|.+++......++.+.....+.++-
T Consensus        88 ~~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~n  137 (161)
T 4h7y_A           88 ANC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRN  137 (161)
T ss_dssp             HHC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHH
T ss_pred             HHh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHh
Confidence            653 33367777777777788888888888888877666555555544443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.83  E-value=0.13  Score=43.63  Aligned_cols=252  Identities=12%  Similarity=0.101  Sum_probs=141.7

Q ss_pred             cCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH--HHHHHHH
Q 038490           15 QKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII--FCNVIGF   92 (344)
Q Consensus        15 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~l~~~   92 (344)
                      .|+++.|++.+..+.+....     .............++..|...|+++...+.+..+.+..|..+...+  ...++..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~-----~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~  103 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQ-----ASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEY  103 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSS-----SCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhh-----ccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            36788888777554221100     1223446777888999999999999998888777665443332221  1222222


Q ss_pred             HHhcccHH--HHHHHHHHHHh--cC-CCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--CC----cccHHHH
Q 038490           93 YGRARLLE--RALQMFDEMSS--FN-VQM---TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--PD----ACSYNIL  158 (344)
Q Consensus        93 ~~~~~~~~--~a~~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~----~~~~~~l  158 (344)
                      .......+  .-..+.+.+..  .| +-.   .......|...+...|++.+|..++..+.....  .+    ...+...
T Consensus       104 l~~~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q  183 (445)
T 4b4t_P          104 LKSSKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQ  183 (445)
T ss_dssp             HHHHCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHH
T ss_pred             HhcCCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            22222222  12222222211  11 111   223456778888999999999999988753211  11    3456677


Q ss_pred             HHHHHhhCChhHHHHHHHHHhh----CCCCcCH--hhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHH---
Q 038490          159 IHGCVVSRRLEDAWKVFDEMVK----RRLQPTL--VTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASL---  229 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l---  229 (344)
                      ++.|...+++.+|..++.++..    ....|+.  ..+...+..+...+++.+|.+.|.++........+...+..+   
T Consensus       184 ~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~  263 (445)
T 4b4t_P          184 MELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSH  263 (445)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHH
Confidence            8889999999999999888642    2222222  344556667777889999998888877654444444322222   


Q ss_pred             -HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 038490          230 -IKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKA  271 (344)
Q Consensus       230 -~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  271 (344)
                       +.+..-.+....-..++.........++...|..++.+|...
T Consensus       264 ~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~  306 (445)
T 4b4t_P          264 IVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTN  306 (445)
T ss_dssp             HHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhc
Confidence             212222222222223333333322234667788888887653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.77  E-value=0.012  Score=41.27  Aligned_cols=85  Identities=7%  Similarity=-0.065  Sum_probs=53.1

Q ss_pred             chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCCcCc
Q 038490          201 LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG---ELSLALGVKEEMVRDK-IEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                      .....+.+.|.+..+..  +++..+...+..++.+.+   +.++++.+++...+.+ +.-+...+-.|.-+|.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~~~--~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHTT--CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHccC--CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            44556666666654432  356666666666777766   4557777777777654 11134455556666777777777


Q ss_pred             HHHHHHHHHHc
Q 038490          277 FPAILKEMKER  287 (344)
Q Consensus       277 a~~~~~~~~~~  287 (344)
                      |.+.++.+.+.
T Consensus        90 A~~y~~~lL~i  100 (152)
T 1pc2_A           90 ALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            77777777765

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.73  E-value=0.09  Score=37.78  Aligned_cols=102  Identities=14%  Similarity=0.175  Sum_probs=68.8

Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhH
Q 038490           91 GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLED  170 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (344)
                      ....+.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+..+        +..+.-.|.-.|+.+.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D--------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS--------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC--------HHHHHHHHHHHTCHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC--------HHHHHHHHHHhCCHHH
Confidence            3345678888887776655      3466788888888888888888888877753        5666666777777777


Q ss_pred             HHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          171 AWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       171 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      ..++-+....+|      -++.....+...|+++++.+++.+
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            666655554443      134445556667788888777755

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.73  E-value=0.019  Score=40.14  Aligned_cols=81  Identities=10%  Similarity=-0.037  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHhccCCC--CcccHHHHHHHHHhhCChhHHHHH
Q 038490          100 ERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG---KLDRMKELFQIMEKYVSP--DACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus       100 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      ..+.+-|.+..+.| +++..+...+..++++.+   +.+++..+++.+.+...|  ....+..+.-+|.+.|++++|.+.
T Consensus        15 ~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           15 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            33444444444444 345555555555555544   344555555555444311  233444444455555555555555


Q ss_pred             HHHHhhC
Q 038490          175 FDEMVKR  181 (344)
Q Consensus       175 ~~~~~~~  181 (344)
                      ++.+.+.
T Consensus        94 ~~~lL~i  100 (152)
T 1pc2_A           94 VRGLLQT  100 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            5555543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.67  E-value=0.052  Score=49.98  Aligned_cols=131  Identities=10%  Similarity=0.067  Sum_probs=89.7

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+.+.|.+++|+++.+..                 ..     -.......|++++|.++.+.+       .+...
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~-----------------~~-----~f~~~l~~~~~~~A~~~~~~~-------~~~~~  683 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ-----------------DQ-----KFELALKVGQLTLARDLLTDE-------SAEMK  683 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH-----------------HH-----HHHHHHHHTCHHHHHHHHTTC-------CCHHH
T ss_pred             HHHHHHHHhCCChHHheecCCCc-----------------ch-----heehhhhcCCHHHHHHHHHhh-------CcHhH
Confidence            34556667788888888777432                 11     134467789999999986443       35678


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      |..+...+.+.++++.|++.|..+..         |..+...+...|+.+....+-+.....+     -++....+|.+.
T Consensus       684 W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~-----~~~~A~~~~~~~  749 (814)
T 3mkq_A          684 WRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG-----KFNLAFNAYWIA  749 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT-----CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC-----chHHHHHHHHHc
Confidence            99999999999999999999998764         4455555666777766665555554322     334445556667


Q ss_pred             CChhHHHHHHHHHh
Q 038490          166 RRLEDAWKVFDEMV  179 (344)
Q Consensus       166 ~~~~~a~~~~~~~~  179 (344)
                      |++++|++++.++.
T Consensus       750 g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          750 GDIQGAKDLLIKSQ  763 (814)
T ss_dssp             TCHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHcC
Confidence            77777777776653

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.45  E-value=0.56  Score=43.39  Aligned_cols=315  Identities=9%  Similarity=-0.018  Sum_probs=164.0

Q ss_pred             hcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCC-CCC---chhH--
Q 038490           12 PRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTR-IVP---KEII--   85 (344)
Q Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~---~~~~--   85 (344)
                      ....|+.++++.+++.......        ...+....-..+.-+....|..+++..++........ +.-   +...  
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~--------s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~  455 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSR--------ASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLH  455 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSC--------CSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccC--------CCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHH
Confidence            4456888889999988644210        1112334444455556677776778887777654321 000   1111  


Q ss_pred             HHH--HHHHHHhcccHHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           86 FCN--VIGFYGRARLLERALQMFDEMSSFNVQMTVK--FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        86 ~~~--l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      -..  |.-+|.-.++ +++...+..+.... .+...  .--.|...+.-.|+-+....++..+.+....+..-...+.-+
T Consensus       456 gAaLGLGla~~GS~~-eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLG  533 (963)
T 4ady_A          456 GASLGIGLAAMGSAN-IEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLA  533 (963)
T ss_dssp             HHHHHHHHHSTTCCC-HHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCC-HHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Confidence            111  2222222333 34555555555432 11111  112333345566777777777777665322222222333444


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHH--HHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFG--TLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGEL  239 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  239 (344)
                      +...|+.+.+..+++.+... ..|....-.  ++..+|+..|+.....+++..+...  ...++.....+.-++...|+.
T Consensus       534 ll~~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~  610 (963)
T 4ady_A          534 LINYGRQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDY  610 (963)
T ss_dssp             HHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSC
T ss_pred             hhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCH
Confidence            55778999999998888765 222222221  2344677888987777788886542  122333333333344456777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc-CcHHHHHHHHHHcCCCCChhhHHHHHHHH--hccC-------CH
Q 038490          240 SLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRK-NEFPAILKEMKERGCKPNSVTYNALISGF--CKEE-------DF  309 (344)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~--~~~~-------~~  309 (344)
                      +.+.++++.+.+.+ .|.+.--..+.-+....|.. .++.+++..+...   +|..+-...+.++  .-.|       ++
T Consensus       611 e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D---~d~~Vrq~Ai~ALG~Ig~gtnna~~~rv  686 (963)
T 4ady_A          611 TTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKD---PVDFVRQAAMIALSMILIQQTEKLNPQV  686 (963)
T ss_dssp             SSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTC---SSHHHHHHHHHHHHHHSTTCCTTTCTTH
T ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccC---CCHHHHHHHHHHHHHHhcCCccccchHH
Confidence            77777776666543 44555445555566666665 4788888888753   3444433333333  2222       33


Q ss_pred             HHHHHHHHHHhhC-CCCCChhhHHHHHHHHhhcCC
Q 038490          310 EAAFTILDEMGDK-GCKANPISYNVILGGLCKDGK  343 (344)
Q Consensus       310 ~~a~~~~~~~~~~-~~~p~~~~~~~ll~~~~~~g~  343 (344)
                      ...++.+...... .-.++...-..+..+....|+
T Consensus       687 a~~l~~L~~~~~dk~~d~~~~fga~iAqGll~aG~  721 (963)
T 4ady_A          687 ADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGG  721 (963)
T ss_dssp             HHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHTTGG
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhcCC
Confidence            4444444444332 223445555555566665553

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.41  E-value=0.12  Score=35.15  Aligned_cols=139  Identities=12%  Similarity=0.103  Sum_probs=91.7

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      -.|.+++..++..+....   .+..-+|-+|--....-+-+...++++.+-...  |.          ..+|++......
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiF--Di----------s~C~NlKrVi~C   83 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYF--DL----------DKCQNLKSVVEC   83 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGS--CG----------GGCSCTHHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhc--Cc----------HhhhcHHHHHHH
Confidence            457777888888777763   345556666665555666666666666654432  22          123444444444


Q ss_pred             HHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 038490          175 FDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI  254 (344)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  254 (344)
                      +-.+-     -+...+...+..+...|+-++-.+++..++.  ..+|++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        84 ~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           84 GVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            43331     2445566677777888888888888877544  4477788888888888888988888888888888876


Q ss_pred             C
Q 038490          255 E  255 (344)
Q Consensus       255 ~  255 (344)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=96.30  E-value=0.058  Score=42.23  Aligned_cols=97  Identities=8%  Similarity=0.016  Sum_probs=75.5

Q ss_pred             hHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHc-----CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc-cCCHHH
Q 038490          239 LSLALGVKEEMVRDKIEM-DAGIYSSLISALFKA-----GRKNEFPAILKEMKERGCKPNSVTYNALISGFCK-EEDFEA  311 (344)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~  311 (344)
                      ...|...+++..+..+.. +...|..+...|...     |+.++|.+.|++..+.+..-+..++......++. .|+.++
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            467778888888764321 256889999999994     9999999999999998543347778888888888 499999


Q ss_pred             HHHHHHHHhhCCCC--CChhhHHHHH
Q 038490          312 AFTILDEMGDKGCK--ANPISYNVIL  335 (344)
Q Consensus       312 a~~~~~~~~~~~~~--p~~~~~~~ll  335 (344)
                      +.+.+++.......  |+....+.+-
T Consensus       259 a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            99999999987666  6665555543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.29  E-value=0.089  Score=36.45  Aligned_cols=53  Identities=6%  Similarity=0.025  Sum_probs=28.0

Q ss_pred             CCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCC
Q 038490          272 GRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCK  325 (344)
Q Consensus       272 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  325 (344)
                      +++++|.++|+.++..+-+- ...|.....--.++|++..|.+++.+.+..+.+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            56666666666665442222 334444444445566666666666666654433

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.09  E-value=0.7  Score=42.78  Aligned_cols=260  Identities=10%  Similarity=-0.055  Sum_probs=132.8

Q ss_pred             HHHhcCCchHHHHHHHHhhhcCCCCCchhHHH--HHHHHHHhcccHHHHHHHHHHHHhcCC-------CCCHHHHHHHHH
Q 038490           56 KLGRAKMFDEMQQILHQLKHDTRIVPKEIIFC--NVIGFYGRARLLERALQMFDEMSSFNV-------QMTVKFFNTLLN  126 (344)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~  126 (344)
                      +....|+.++++.++....... ...+..+-.  .+.-+....|...++..++.......-       .+....-..+.-
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~-~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGS-RASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTS-CCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhcccc-CCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            4566788888888777655421 012222222  222333444544567776666554320       011222222222


Q ss_pred             HHHhcCC-hHHHHHHHHHHhccCCCCcccHH--HHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchH
Q 038490          127 PKLTCGK-LDRMKELFQIMEKYVSPDACSYN--ILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRV  203 (344)
Q Consensus       127 ~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  203 (344)
                      +.+-.|. -+++...+..+............  ++...+.-.|+-+....++..+.+.. .-+..-...+.-++...|+.
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCG
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCCh
Confidence            3332332 23444444444332111111122  22333445677777777777766542 21222222233344467888


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHH--HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHH
Q 038490          204 DEALKLKEDIMRVYNVKPDGQVFA--SLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAIL  281 (344)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  281 (344)
                      +.+..+.+.+...  ..|....-.  ++.-+|+..|+.....+++..+..... .++.-...+.-++...|+.+.+.+++
T Consensus       541 e~~~~li~~L~~~--~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~-d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          541 ELADDLITKMLAS--DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSN-DDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSC-HHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHHHhC--CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCc-HHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            8888887775442  123222222  333456788898877778888887532 24444444445556678888888888


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCH-HHHHHHHHHHhh
Q 038490          282 KEMKERGCKPNSVTYNALISGFCKEEDF-EAAFTILDEMGD  321 (344)
Q Consensus       282 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~  321 (344)
                      +.+.+.+ .|.++.-..+.-+....|.. .++..++..+..
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            7666543 34444444444444444443 567778887764

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.71  E-value=0.17  Score=34.04  Aligned_cols=80  Identities=11%  Similarity=-0.065  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH---HHHHHHHHhccCCC--CcccHHHHHHHHHhhCChhHHHHH
Q 038490          100 ERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDR---MKELFQIMEKYVSP--DACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus       100 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      ..+.+-|......| .++..+-..+..++.+..+...   +..+++.+...+.|  .......+.-++.+.|++++|.+.
T Consensus        18 ~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           18 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            33344444333333 2444444444444444443332   44444444333211  222223333444444444444444


Q ss_pred             HHHHhh
Q 038490          175 FDEMVK  180 (344)
Q Consensus       175 ~~~~~~  180 (344)
                      ++.+++
T Consensus        97 ~~~lL~  102 (126)
T 1nzn_A           97 VRGLLQ  102 (126)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.47  E-value=0.15  Score=34.23  Aligned_cols=80  Identities=15%  Similarity=0.088  Sum_probs=36.5

Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhH---HHHHHHHHhhCCCCc--CHhhHHHHHHHHHhhchHHHHHHHH
Q 038490          136 RMKELFQIMEKYVSPDACSYNILIHGCVVSRRLED---AWKVFDEMVKRRLQP--TLVTFGTLIYGLCLELRVDEALKLK  210 (344)
Q Consensus       136 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~  210 (344)
                      .+.+-|......+.++..+-..+..+++++++...   ++.+++++...+ .|  .....-.+.-++.+.|++++|.+.+
T Consensus        19 ~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~   97 (126)
T 1nzn_A           19 KFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYV   97 (126)
T ss_dssp             HHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            33444444333344555555555555555554433   555555555442 11  1111112333455555555555555


Q ss_pred             HHHHHh
Q 038490          211 EDIMRV  216 (344)
Q Consensus       211 ~~~~~~  216 (344)
                      +.+++.
T Consensus        98 ~~lL~~  103 (126)
T 1nzn_A           98 RGLLQT  103 (126)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.39  E-value=1.1  Score=38.02  Aligned_cols=257  Identities=9%  Similarity=0.066  Sum_probs=150.1

Q ss_pred             cCCchHHHHHHHHhhhcC----CCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH----Hhc
Q 038490           60 AKMFDEMQQILHQLKHDT----RIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK----LTC  131 (344)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  131 (344)
                      .|+++.|++.+..+.+..    ...........++..|...++++...+.+..+.+..-.. ......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            378889988887766431    234456678889999999999999988887766432122 22233444333    223


Q ss_pred             CChHH--HHHHHHHHhccCCCCcc---------cHHHHHHHHHhhCChhHHHHHHHHHhhC--CCCcC---HhhHHHHHH
Q 038490          132 GKLDR--MKELFQIMEKYVSPDAC---------SYNILIHGCVVSRRLEDAWKVFDEMVKR--RLQPT---LVTFGTLIY  195 (344)
Q Consensus       132 ~~~~~--a~~~~~~~~~~~~~~~~---------~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~  195 (344)
                      ...+.  -..+.+.+...  ....         ....|...|...|++.+|..++..+...  |....   ...+...++
T Consensus       108 ~~~d~~~~~~~i~~l~~v--te~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~r  185 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVV--TENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQME  185 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSS--SSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHH--hccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            33222  12222222111  1111         2256778889999999999999998643  32222   235666678


Q ss_pred             HHHhhchHHHHHHHHHHHHHh-cCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHH----HHH
Q 038490          196 GLCLELRVDEALKLKEDIMRV-YNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRD-KIEMDAGIYS----SLI  265 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~----~l~  265 (344)
                      .|...+++.+|..++.++... ....++    ...+...+..+...+++.+|...|.++... ...-+...+.    .++
T Consensus       186 l~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v  265 (445)
T 4b4t_P          186 LSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIV  265 (445)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHH
Confidence            888999999999999886321 112222    234566677778889999888888777642 1111332222    222


Q ss_pred             HHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhcc--CCHHHHHHHHHHH
Q 038490          266 SALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKE--EDFEAAFTILDEM  319 (344)
Q Consensus       266 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--~~~~~a~~~~~~~  319 (344)
                      .+..-.+....-..++........-++...|..++.+|...  .+++.+.+.|+..
T Consensus       266 ~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          266 YFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSS
T ss_pred             HHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHH
Confidence            22233333344444555444433334677788888888654  4566666655443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.22  E-value=0.37  Score=43.57  Aligned_cols=127  Identities=13%  Similarity=0.075  Sum_probs=83.9

Q ss_pred             HHHHHHHHHhcCC-chHHHHHHHHhhhcCCCCCchhHHH--HHHHHHHhcc-cHHHHHHHHHHHHhc------CCCC-CH
Q 038490           50 YDLIITKLGRAKM-FDEMQQILHQLKHDTRIVPKEIIFC--NVIGFYGRAR-LLERALQMFDEMSSF------NVQM-TV  118 (344)
Q Consensus        50 ~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~~-~~  118 (344)
                      -..++..+...++ .+.|..+|+++...   .|...++.  .++..+...+ +--+|.+++.+..+.      ..++ +.
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~---~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~  327 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKK---DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDA  327 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhh---CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            3456666666666 58899999999875   35433322  3333333332 233455555544321      1111 21


Q ss_pred             H----------HHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHh
Q 038490          119 K----------FFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMV  179 (344)
Q Consensus       119 ~----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (344)
                      .          ....=...+...|+++.|+.+-++.....|.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       328 ~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          328 DSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            1          111223345678999999999999998888889999999999999999999999998873

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.09  E-value=0.48  Score=32.24  Aligned_cols=145  Identities=12%  Similarity=0.066  Sum_probs=81.9

Q ss_pred             HHHHHHH--HHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           50 YDLIITK--LGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        50 ~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      ...|+.+  +.-.|..++..++..+.....    +..-+|-+|.-....-+-+-..++++.+-+.   -|.         
T Consensus         8 ~kkLmeAK~~ildG~v~qGveii~k~~~ss----ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi---------   71 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKIVLEITKSS----TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL---------   71 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS----CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG---------
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHcCCC----CccccceeeeecchhhchhHHHHHHHHHhhh---cCc---------
Confidence            3444443  455688999999998887753    4444555665555555666555555554321   111         


Q ss_pred             HHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHH
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEAL  207 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  207 (344)
                       ..+|++......+-.+-    .+....+..+......|.-++-.+++..+... .+|++.....+..+|.+.|+..++.
T Consensus        72 -s~C~NlKrVi~C~~~~n----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~  145 (172)
T 1wy6_A           72 -DKCQNLKSVVECGVINN----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDAT  145 (172)
T ss_dssp             -GGCSCTHHHHHHHHHTT----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             -HhhhcHHHHHHHHHHhc----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHH
Confidence             12333433333333332    34445555566666666666666666664432 3455566666666666677766666


Q ss_pred             HHHHHHHHh
Q 038490          208 KLKEDIMRV  216 (344)
Q Consensus       208 ~~~~~~~~~  216 (344)
                      +++.++.+.
T Consensus       146 eLl~~AC~k  154 (172)
T 1wy6_A          146 TLLIEACKK  154 (172)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            666665543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.08  E-value=1.1  Score=43.06  Aligned_cols=144  Identities=11%  Similarity=0.097  Sum_probs=84.9

Q ss_pred             HHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhc----C--------------
Q 038490           52 LIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSF----N--------------  113 (344)
Q Consensus        52 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--------------  113 (344)
                      .++..+...+..+-+.++......      +...--.+..++...|++++|.+.|.+....    +              
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~~------~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLNS------DPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSCC------CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccC------CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            355566666777666665443321      2222234556666777777777777654210    0              


Q ss_pred             ----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCc-----ccHHHHHHHHHhhCChhHHHHHHHHHhhCCCC
Q 038490          114 ----VQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA-----CSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQ  184 (344)
Q Consensus       114 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  184 (344)
                          ...-..-|..++..+.+.+.++.+.++-....+...++.     ..|..+...+...|++++|...+-.+.....+
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence                011224567777778888888887777666554433221     24677788888888888888888777665433


Q ss_pred             cCHhhHHHHHHHHHhhchH
Q 038490          185 PTLVTFGTLIYGLCLELRV  203 (344)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~  203 (344)
                        ......++...|..|..
T Consensus       971 --~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          971 --KSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             --HHHHHHHHHHHHHHCCH
T ss_pred             --HHHHHHHHHHHHhCCCh
Confidence              33455555555555443

>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=94.77  E-value=0.45  Score=30.31  Aligned_cols=48  Identities=4%  Similarity=0.142  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccC
Q 038490          101 RALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV  148 (344)
Q Consensus       101 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  148 (344)
                      +..+.++.+...++.|++.+..+.+++|-+.+++..|.++|+.++...
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~   75 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA   75 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            344444444444444555555555555555555555555555444433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.76  E-value=0.13  Score=42.81  Aligned_cols=73  Identities=12%  Similarity=0.073  Sum_probs=49.5

Q ss_pred             cHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHH----HhcCCCCCHHHHH
Q 038490          154 SYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIM----RVYNVKPDGQVFA  227 (344)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~  227 (344)
                      +...++..+...|+++++...+..+... .+.+...+..+|.++.+.|+..+|.+.|+.+.    ++.|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3445666777777787777777777655 24466677777778888888877777776643    2347777766543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.48  E-value=0.39  Score=39.89  Aligned_cols=66  Identities=11%  Similarity=0.076  Sum_probs=38.9

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHh-----cCCCCCHHH
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSS-----FNVQMTVKF  120 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  120 (344)
                      ++..+...|++.+|...+..+....  +.+...+..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~--P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3444555666666666666665542  44555666666666666666666666666542     366665543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.36  E-value=1.2  Score=42.91  Aligned_cols=190  Identities=15%  Similarity=0.143  Sum_probs=114.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCc------------------
Q 038490          124 LLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQP------------------  185 (344)
Q Consensus       124 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------------  185 (344)
                      ++..+...+..+.+.++..-+.    .+......+..+|...|++++|.+.|++.-. |+..                  
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~~----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWLN----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHSC----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhcc----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccc
Confidence            3344445555555554433322    3444445667788889999999999977421 1100                  


Q ss_pred             -----CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 038490          186 -----TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD---GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD  257 (344)
Q Consensus       186 -----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  257 (344)
                           -..-|..++..+.+.+.++.+.++-+..++..+..++   ...|..+...+...|++++|...+-.+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence                 1133667777888888888888888777765432221   12578888999999999999988887766543  3


Q ss_pred             HHHHHHHHHHHHHcCCcC------------cHHHHHHHHHH-c-CCCCChhhHHHHHHHHhccCCHHHH-HHHHHHHh
Q 038490          258 AGIYSSLISALFKAGRKN------------EFPAILKEMKE-R-GCKPNSVTYNALISGFCKEEDFEAA-FTILDEMG  320 (344)
Q Consensus       258 ~~~~~~l~~~~~~~g~~~------------~a~~~~~~~~~-~-~~~p~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  320 (344)
                      ......|+...+..|..+            +..+++..-.+ . .+...+.-|..|-.-+...|++.+| .-+|+.+.
T Consensus       971 ~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~ 1048 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLS 1048 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHH
Confidence            456667777666665543            33334332211 1 1111223456666666777777654 44566554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.21  E-value=0.43  Score=43.15  Aligned_cols=53  Identities=19%  Similarity=0.196  Sum_probs=37.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHH
Q 038490          231 KGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEM  284 (344)
Q Consensus       231 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  284 (344)
                      +-+...|+++.|+++-++....-+. +-.+|..|..+|...|+++.|+-.+..+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3345667777777777777766433 5677777777888888877777777665

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.11  E-value=0.0085  Score=50.36  Aligned_cols=85  Identities=12%  Similarity=0.130  Sum_probs=64.9

Q ss_pred             CCchhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCC
Q 038490            2 PTSSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVP   81 (344)
Q Consensus         2 p~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (344)
                      |..-++|+....+.+.+.+|++.|-+..                |+..|..++.+..+.|.+++-...+.-..+.   .-
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIkA~----------------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~---~k  114 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIKAD----------------DPSSYMEVVQAANTSGNWEELVKYLQMARKK---AR  114 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCCCS----------------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT---CC
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHhCC----------------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH---hc
Confidence            6667889999999999999999996662                5667888999999999999999988766654   22


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQM  105 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~  105 (344)
                      ++..=+.|+-+|++.++..+.+++
T Consensus       115 e~~IDteLi~ayAk~~rL~elEef  138 (624)
T 3lvg_A          115 ESYVETELIFALAKTNRLAELEEF  138 (624)
T ss_dssp             STTTTHHHHHHHHTSCSSSTTTST
T ss_pred             ccccHHHHHHHHHhhCcHHHHHHH
Confidence            334445688888888876654433

>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=94.04  E-value=3  Score=36.92  Aligned_cols=288  Identities=9%  Similarity=0.023  Sum_probs=153.8

Q ss_pred             hhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHH
Q 038490           10 CLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNV   89 (344)
Q Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l   89 (344)
                      ....+.|++..+..+-..+...+          .. ....|..+...+ .....+++...+++..   +.+.....-...
T Consensus        14 ~~a~~~~~~~~~~~l~~~l~~~p----------L~-~yl~y~~l~~~l-~~~~~~ev~~Fl~~~~---~~p~~~~Lr~~~   78 (618)
T 1qsa_A           14 KQAWDNRQMDVVEQMMPGLKDYP----------LY-PYLEYRQITDDL-MNQPAVTVTNFVRANP---TLPPARTLQSRF   78 (618)
T ss_dssp             HHHHHTTCHHHHHHHSGGGTTST----------TH-HHHHHHHHHHTG-GGCCHHHHHHHHHHCT---TCHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhhcCCC----------cH-HHHHHHHHHhCc-ccCCHHHHHHHHHHCC---CChhHHHHHHHH
Confidence            33456788888888877762211          11 122343333222 1224555555554432   233333444556


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChh
Q 038490           90 IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLE  169 (344)
Q Consensus        90 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (344)
                      +..+.+.+++...+..+..     .+.+...-.....+....|+...|......+=..+......+..++..+.+.|.+.
T Consensus        79 l~~l~~~~~w~~~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~g~lt  153 (618)
T 1qsa_A           79 VNELARREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQD  153 (618)
T ss_dssp             HHHHHHTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSC
T ss_pred             HHHHHhCCCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHCCCCC
Confidence            7777778888877765543     14566666667777778888777777666665555556666777777766555432


Q ss_pred             H--HHHHHHHHhhCC-----------CCcCH----------------------------hh---HHHHHHHHHhhchHHH
Q 038490          170 D--AWKVFDEMVKRR-----------LQPTL----------------------------VT---FGTLIYGLCLELRVDE  205 (344)
Q Consensus       170 ~--a~~~~~~~~~~~-----------~~~~~----------------------------~~---~~~l~~~~~~~~~~~~  205 (344)
                      .  ...-++.+...|           +.++.                            ..   +...+.-+. ..+.+.
T Consensus       154 ~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~rla-r~d~~~  232 (618)
T 1qsa_A          154 PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFTRQMAAVAFASVA-RQDAEN  232 (618)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHHHHHHHHHHH-HHCHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhHHHHHhccCCChhhHHHHHHHHHHHH-hcCHHH
Confidence            2  111111111111           11111                            00   000111111 235677


Q ss_pred             HHHHHHHHHHhcCCCCCHH--HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHH
Q 038490          206 ALKLKEDIMRVYNVKPDGQ--VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKE  283 (344)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  283 (344)
                      |...+....+...+.+...  ....+.......+...++...+.......  .+.......+....+.|+++.|...|..
T Consensus       233 A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~~~~~~  310 (618)
T 1qsa_A          233 ARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLAR  310 (618)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7777777544332322211  12222222333442445556666554432  3444444555556678999999999988


Q ss_pred             HHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          284 MKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       284 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      |...... ...-.--+.+++...|+.++|..+|+++..
T Consensus       311 l~~~~~~-~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          311 LPMEAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             SCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ccccccc-cHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            8653211 223233355677888999999999999875

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=93.69  E-value=1  Score=30.41  Aligned_cols=63  Identities=8%  Similarity=0.145  Sum_probs=44.2

Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           98 LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        98 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      |.-+..+-++.+...++.|++.+....+++|-+.+|+..|.++|+-++....+....|..++.
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            444566666777777777788888888888888888888888887777665555555655544

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.53  E-value=0.39  Score=30.56  Aligned_cols=63  Identities=14%  Similarity=0.117  Sum_probs=42.6

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHH
Q 038490          238 ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALIS  301 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  301 (344)
                      +.-+..+-++.+...+..|++.+..+.+++|.+.+++.-|.++|+-++.+- .+....|..++.
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            444666666677777777788888888888888888888888887776652 223344655553

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.79  E-value=1.1  Score=31.71  Aligned_cols=24  Identities=8%  Similarity=-0.063  Sum_probs=12.3

Q ss_pred             HHHHHHHhhchHHHHHHHHHHHHH
Q 038490          192 TLIYGLCLELRVDEALKLKEDIMR  215 (344)
Q Consensus       192 ~l~~~~~~~~~~~~a~~~~~~~~~  215 (344)
                      .+.+++...+++..|...|++.++
T Consensus        68 ~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           68 YHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHH
Confidence            344455555555555555555443

>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=92.45  E-value=4  Score=33.76  Aligned_cols=172  Identities=7%  Similarity=-0.055  Sum_probs=109.9

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch---hHHHHHHHHHHhc-ccHHHHHHHHHHHHhcCC-CCCHH--
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE---IIFCNVIGFYGRA-RLLERALQMFDEMSSFNV-QMTVK--  119 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~-~~~~~--  119 (344)
                      ..+...+...|.+.|+.++..+++.....-.+.-|..   .....++..+... +..+.-.++..+..+..- ..-..  
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr   98 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567788999999999999999998876543223332   3455677777653 334444444444443210 11111  


Q ss_pred             --HHHHHHHHHHhcCChHHHHHHHHHHhccCC-CC-----cccHHHHHHHHHhhCChhHHHHHHHHHhhC--CCCcCHhh
Q 038490          120 --FFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PD-----ACSYNILIHGCVVSRRLEDAWKVFDEMVKR--RLQPTLVT  189 (344)
Q Consensus       120 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  189 (344)
                        +=..++..|...|++.+|..++..+.+... .|     ...+..-+..|...+++.++...+......  .+.+++..
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence              223678899999999999999988876433 22     233555667888999999999999887543  22233333


Q ss_pred             HHHH----HHHHH-hhchHHHHHHHHHHHHHhcC
Q 038490          190 FGTL----IYGLC-LELRVDEALKLKEDIMRVYN  218 (344)
Q Consensus       190 ~~~l----~~~~~-~~~~~~~a~~~~~~~~~~~~  218 (344)
                      ...+    ...+. ..+++..|...|-+..+...
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~  212 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAFEGFD  212 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHHhccc
Confidence            2211    12345 68899999998888765443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.40  E-value=2.3  Score=28.82  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=11.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC
Q 038490          229 LIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       229 l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +.-++.+.|+++.|.+..+.+.+.
T Consensus        84 LAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           84 LTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhh
Confidence            333444555555555555544443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.13  E-value=4.3  Score=31.38  Aligned_cols=53  Identities=15%  Similarity=0.135  Sum_probs=29.5

Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc
Q 038490           94 GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      .+.|+++++++....-++.. |.|...-..|++.++-.|+|++|..-++...+.
T Consensus         8 l~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34555555555555555554 455555555556666666666665555555443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=91.02  E-value=1  Score=30.41  Aligned_cols=62  Identities=15%  Similarity=0.118  Sum_probs=40.0

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHH
Q 038490          238 ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI  300 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  300 (344)
                      |.-+..+-++.+...+..|++.+..+.+++|.+.+|+.-|.++|+-++.+- .+....|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            344555666666666677777777777777777777777777777776552 22344465554

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=90.94  E-value=5.3  Score=32.11  Aligned_cols=139  Identities=10%  Similarity=-0.030  Sum_probs=78.7

Q ss_pred             HHhcccHHHHHHH----HHHHHhcCCCCCHHHHHHHHHHHHhcCChH--------HHHHHHHHHhccCCCCcccHHHHHH
Q 038490           93 YGRARLLERALQM----FDEMSSFNVQMTVKFFNTLLNPKLTCGKLD--------RMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        93 ~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      +.+.|+...|-++    ++-+.+.+++++......++..+.....-+        +|..+-...-.....++.....+..
T Consensus        65 ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~  144 (336)
T 3lpz_A           65 LLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGT  144 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHH
T ss_pred             HHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Confidence            3445555444433    355556777888888888888777655321        2222222211111156677788889


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      .|.+.+++.+|...|-  .  |..++...|..++..+...+...               ..+...-.+++ .|...++..
T Consensus       145 ~~~~e~~~~~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~---------------e~dlfiaRaVL-~yL~l~n~~  204 (336)
T 3lpz_A          145 LYVEEGEFEAAEKHLV--L--GTKESPEVLARMEYEWYKQDESH---------------TAPLYCARAVL-PYLLVANVR  204 (336)
T ss_dssp             HHHHTTCHHHHHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGG---------------GHHHHHHHHHH-HHHHTTCHH
T ss_pred             HHHccCCHHHHHHHHH--h--cCCchHHHHHHHHHHHHHhcCCc---------------cHHHHHHHHHH-HHHHhCCHH
Confidence            9999999999888772  2  33444466666654443333211               12222223333 456678888


Q ss_pred             HHHHHHHHHHH
Q 038490          241 LALGVKEEMVR  251 (344)
Q Consensus       241 ~a~~~~~~~~~  251 (344)
                      .|..+++...+
T Consensus       205 ~A~~~~~~f~~  215 (336)
T 3lpz_A          205 AANTAYRIFTS  215 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88887766553

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.38  E-value=5.8  Score=31.60  Aligned_cols=176  Identities=10%  Similarity=0.053  Sum_probs=92.3

Q ss_pred             HHHHhcCCchHHHHHHHHhhhcC----CCCCchhHHHHHHHHHHhcccHHHHHHH----HHHHHhcCCCCCHHHHHHHHH
Q 038490           55 TKLGRAKMFDEMQQILHQLKHDT----RIVPKEIIFCNVIGFYGRARLLERALQM----FDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ......|++=+|.+.++.+..+.    ....-......-...+.+.|+...|-.+    .+.+.+.+++++......++.
T Consensus        21 ~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~  100 (312)
T 2wpv_A           21 ENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVR  100 (312)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             HHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            33444566666666555543321    0000011122223344556776655554    455556678888888888888


Q ss_pred             HHHhcCChH-HHHHHHHHH----hccCC---CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHH
Q 038490          127 PKLTCGKLD-RMKELFQIM----EKYVS---PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLC  198 (344)
Q Consensus       127 ~~~~~~~~~-~a~~~~~~~----~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  198 (344)
                      .+.....-+ .-..+++.+    .+.+.   .++.....+...|.+.|++.+|...|-.    |..-|...+..++.-+.
T Consensus       101 l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~----~~~~s~~~~a~~l~~w~  176 (312)
T 2wpv_A          101 LIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFML----GTHDSMIKYVDLLWDWL  176 (312)
T ss_dssp             HHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHT----SCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHh----CCCccHHHHHHHHHHHH
Confidence            776643211 112222222    22211   5667788888889999988888877641    11113455555554444


Q ss_pred             hh---chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038490          199 LE---LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       199 ~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                      ..   |...++-               ...-.++ -.|...++...|..+++...
T Consensus       177 ~~~~~~~~~e~d---------------lf~~RaV-L~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          177 CQVDDIEDSTVA---------------EFFSRLV-FNYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHTTCCCHHHHH---------------HHHHHHH-HHHHHTTBHHHHHHHHHHHH
T ss_pred             HhcCCCCcchHH---------------HHHHHHH-HHHHHhcCHHHHHHHHHHHH
Confidence            33   3222221               1111222 23556788888888888765

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.92  E-value=3.4  Score=29.21  Aligned_cols=122  Identities=10%  Similarity=0.026  Sum_probs=62.6

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch-------hHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCCC
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE-------IIFCNVIGFYGRARLLERALQMFDEMSSFN--VQMT  117 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~  117 (344)
                      ..++-.-+..+...|.++.|+-+...+....+..|+.       .++..+.+++...+++..|...|++.++..  +..+
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~   99 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKT   99 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            3445556677778888888887777655432222331       244556677778888888888888765321  1111


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhh
Q 038490          118 VKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       118 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (344)
                      ...+..+-.    .......       .. ...+...-.-+..+|.+.+++++|+.+++.+..
T Consensus       100 ~s~~~~~~~----~ss~p~s-------~~-~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          100 SKVRPSTGN----SASTPQS-------QC-LPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             ----------------------------C-CCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             CCccccccc----cCCCccc-------cc-ccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            111111100    0000000       00 001223334467788888888888888876543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.28  E-value=2.5  Score=32.61  Aligned_cols=117  Identities=15%  Similarity=0.085  Sum_probs=73.4

Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCC--CcCHhhHHHHHHHHHhhchH
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRL--QPTLVTFGTLIYGLCLELRV  203 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  203 (344)
                      ....+.|+++.++.....-.+..|.|...-..++..+|-.|++++|.+-++...+...  .|....|..+|.+       
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 KNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA-------   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH-------
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH-------
Confidence            3456788899999888888887788888888889999999999999988888776521  1122233333322       


Q ss_pred             HHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHH--hcCChHHHHHHHHHHHHC
Q 038490          204 DEALKLKEDIMRVYN----VKPDGQVFASLIKGLC--AVGELSLALGVKEEMVRD  252 (344)
Q Consensus       204 ~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~  252 (344)
                         +..=.+++....    +.........++.+..  ..|+.++|..+-.++.+.
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence               222222222110    1112334445555543  458888888888877654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.67  E-value=4.4  Score=27.84  Aligned_cols=50  Identities=18%  Similarity=0.194  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          202 RVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +..+++.+++.+.+.. ..-.....-.+.-++.+.|++++|.+..+.+++.
T Consensus        57 di~~GI~LLe~l~~~~-~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           57 DERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             HHHHHHHHHHHHHHHC-CSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcC-ccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            3345555666655532 1112223333444555666666666666666655

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.20  E-value=7.3  Score=32.77  Aligned_cols=62  Identities=10%  Similarity=-0.156  Sum_probs=35.7

Q ss_pred             hHHHHHHHHHhhchHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038490          189 TFGTLIYGLCLELRVDEALKLKEDIMRVYN-VKPDGQVFASLIKGLCAVGELSLALGVKEEMV  250 (344)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  250 (344)
                      +...+...|.+.|+++.|.+.+.++..... ...-...+-.+++.+...+++..+...+.++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            445566666677777777777766544321 11123445555666666666666666666654

>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=88.08  E-value=4.6  Score=27.36  Aligned_cols=66  Identities=14%  Similarity=0.038  Sum_probs=27.8

Q ss_pred             CCHHHHHHHHHHHHHcCCc---CcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          256 MDAGIYSSLISALFKAGRK---NEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       256 ~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      |+..+-..+..+++++.+.   .+++.+++++.+.+..-....+-.+.-++.+.|++++|.++.+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3444444444444444332   23444444444433111122222333345555555555555555544

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.58  E-value=12  Score=31.51  Aligned_cols=100  Identities=10%  Similarity=-0.115  Sum_probs=63.1

Q ss_pred             cccHHHHHHHHHhhCChhHHHHHHHHHhhC--CCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490          152 ACSYNILIHGCVVSRRLEDAWKVFDEMVKR--RLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASL  229 (344)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  229 (344)
                      ..+...+...|.+.|+++.|.+.+.++...  +..--...+-.+++.+...+++..+...+.++.....-.++....+.+
T Consensus       131 ~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~l  210 (429)
T 4b4t_R          131 AQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRY  210 (429)
T ss_dssp             SSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHH
Confidence            346777888888888888888888888764  222234456667777788888888888887764433223333322221


Q ss_pred             ----HHHHHhcCChHHHHHHHHHHHH
Q 038490          230 ----IKGLCAVGELSLALGVKEEMVR  251 (344)
Q Consensus       230 ----~~~~~~~~~~~~a~~~~~~~~~  251 (344)
                          ...+...+++..|...|-+...
T Consensus       211 k~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          211 KTYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHhc
Confidence                1122356778877777766654

>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=85.55  E-value=4.7  Score=25.65  Aligned_cols=56  Identities=11%  Similarity=0.090  Sum_probs=26.0

Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccH
Q 038490           94 GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSY  155 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  155 (344)
                      ...|++++|..+.+.+.    .||...|..|..  .+.|-.+.+...+.++...+.|....|
T Consensus        51 mNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~sg~p~~q~F  106 (116)
T 2p58_C           51 MNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLNRLARSQDPRIQTF  106 (116)
T ss_dssp             HHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             HcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhCCCHHHHHH
Confidence            34555555555544433    444444443332  344555555555555544444433333

>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=84.66  E-value=9.9  Score=27.91  Aligned_cols=69  Identities=9%  Similarity=0.015  Sum_probs=43.5

Q ss_pred             CCCchhHHHHHHHHHHh--cccHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHhcc
Q 038490           79 IVPKEIIFCNVIGFYGR--ARLLERALQMFDEMSSFNVQMT-VKFFNTLLNPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus        79 ~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      .+-|.......+...-.  .+....+..+|..|...||-.. ...|......+...|++.+|..+|+.-.+.
T Consensus        73 YkND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~  144 (202)
T 3esl_A           73 YRNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAEN  144 (202)
T ss_dssp             GTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            45566544444433322  3446677777777776665443 456777777777778888888888777664

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=82.73  E-value=4.4  Score=25.73  Aligned_cols=53  Identities=9%  Similarity=0.016  Sum_probs=23.1

Q ss_pred             HhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCc
Q 038490           94 GRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDA  152 (344)
Q Consensus        94 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  152 (344)
                      ...|++++|..+.+.+.    .||...|..|..  .+.|-.+.+...+.++...+.|..
T Consensus        50 mNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~sg~p~~  102 (115)
T 2uwj_G           50 ANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLAGLGGSSDPAL  102 (115)
T ss_dssp             HHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCSSHHH
T ss_pred             HcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhCCCHHH
Confidence            34455555554443332    344444433322  344444455544444444443333

>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=82.67  E-value=12  Score=27.44  Aligned_cols=56  Identities=9%  Similarity=0.006  Sum_probs=44.2

Q ss_pred             cCChHHHHHHHHHHhccCC--CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcC
Q 038490          131 CGKLDRMKELFQIMEKYVS--PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPT  186 (344)
Q Consensus       131 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  186 (344)
                      .++...+..+|..|...+.  .-...|......+-..|++.+|.++|+.-.+.+-.|-
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            4456788888888877655  5566778888888889999999999998888877763

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=82.17  E-value=10  Score=26.10  Aligned_cols=68  Identities=12%  Similarity=0.066  Sum_probs=34.4

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          220 KPDGQVFASLIKGLCAVGE---LSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      .|+..+--.+..++.+..+   ..+++.+++.+.+.+..-.....-.|.-++.+.|++++|.+..+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4455554445555555443   2345555555555432222333344455556666666666666665554

>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=81.51  E-value=21  Score=29.49  Aligned_cols=242  Identities=9%  Similarity=0.003  Sum_probs=137.9

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhc-CCCC---CHHHHHHHHHHHHhc-CChHHHHHHHHHHhccCCCCcccH---
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSF-NVQM---TVKFFNTLLNPKLTC-GKLDRMKELFQIMEKYVSPDACSY---  155 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~---  155 (344)
                      .....|...|.+.|+.++..+++...... +.-+   .......++..+... +..+.-.++..+..+.......+|   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566889999999999999998877532 1111   234566777777664 334444455444443222233444   


Q ss_pred             ---HHHHHHHHhhCChhHHHHHHHHHhhCCCCcC-----HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcC-CCCCHHHH
Q 038490          156 ---NILIHGCVVSRRLEDAWKVFDEMVKRRLQPT-----LVTFGTLIYGLCLELRVDEALKLKEDIMRVYN-VKPDGQVF  226 (344)
Q Consensus       156 ---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~  226 (344)
                         .-++..|...|++.+|.+++.++.+.=-..|     ...+..-+..|...+++.++...+.......+ +.+++.+.
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               2578899999999999999998876411112     22344556778889999999999987654332 22444433


Q ss_pred             HHH----HHHHH-hcCChHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHHcCCcCcHHHHHH-HHHHcCCCCChh
Q 038490          227 ASL----IKGLC-AVGELSLALGVKEEMVRDKIEMD------AGIYSSLISALFKAGRKNEFPAILK-EMKERGCKPNSV  294 (344)
Q Consensus       227 ~~l----~~~~~-~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~p~~~  294 (344)
                      ..+    ...+. ..+++..|...|-+..+.--...      ...|..|..  .-.++..+...++. .....-..|+..
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~a--Ll~~~r~el~~~l~~~~~~~~~~pei~  257 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCK--IMLGQSDDVNQLVSGKLAITYSGRDID  257 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH--HHTTCGGGHHHHHHSHHHHTTCSHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHH--HHcCCHHHHHHHhccccccccCCccHH
Confidence            222    22345 78899999887776643110111      122322222  22344444444332 211111245555


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCChh
Q 038490          295 TYNALISGFCKEEDFEAAFTILDEMGDKGCKANPI  329 (344)
Q Consensus       295 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  329 (344)
                      .+..++.+| ..+++.+...+++.... .+..|..
T Consensus       258 ~l~~L~~a~-~~~dl~~f~~iL~~~~~-~l~~D~~  290 (394)
T 3txn_A          258 AMKSVAEAS-HKRSLADFQAALKEYKK-ELAEDVI  290 (394)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHSTT-TTTTSHH
T ss_pred             HHHHHHHHH-HhCCHHHHHHHHHHHHH-HHhcChH
Confidence            566666654 45677777777666543 2444554

>4gq2_M Nucleoporin NUP120; beta propeller alpha helical, component of nuclear pore COMP transport protein; 2.40A {Schizosaccharomyces pombe} PDB: 4fhm_B

Probab=80.85  E-value=19  Score=33.91  Aligned_cols=48  Identities=6%  Similarity=-0.002  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhccCC-CCc----ccHHHHHHHHHhhC
Q 038490          119 KFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-PDA----CSYNILIHGCVVSR  166 (344)
Q Consensus       119 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~l~~~~~~~~  166 (344)
                      .-|..++..+-+.+-++.+.++-+...+.-. .+.    ..|+.+.++.+..|
T Consensus       898 ~YY~hV~~LFE~~~a~~~vi~fA~lAI~~~~~dd~~l~~~l~~r~f~~a~a~g  950 (950)
T 4gq2_M          898 CYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAG  950 (950)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCSCCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHhhCC
Confidence            3678888888888888888887777665433 222    24555666555443

---

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	344
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.8
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.52
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.51
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.47
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.43
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.42
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.42
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.42
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.38
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.3
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.3
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.07
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.97
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.85
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.85
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.83
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.83
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.82
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.8
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.78
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.7
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.68
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.65
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.58
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.58
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.55
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.55
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.52
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.49
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.38
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.38
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.33
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.33
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.29
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.28
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.28
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.26
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.25
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.2
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.17
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.14
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.14
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.08
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.98
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.97
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.7
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.6
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.55
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.5
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.45
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.21
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.14
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.54
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.91
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.81
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.5
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.48
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.17
d1bpoa1	157	Clathrin heavy-chain linker domain {Rat (Rattus no	88.53

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.3e-23  Score=173.17  Aligned_cols=318  Identities=12%  Similarity=-0.006  Sum_probs=268.4

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+.+.|++++|++.|+++.+.           .|.+..++..+..++.+.|++++|+..|++..+..  +-+..+
T Consensus         3 l~la~~~~~~G~~~~A~~~~~~~l~~-----------~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~a   69 (388)
T d1w3ba_           3 MELAHREYQAGDFEAAERHCMQLWRQ-----------EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEA   69 (388)
T ss_dssp             CTHHHHHHHHTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHH
Confidence            45778888999999999999997443           33378899999999999999999999999998753  445778


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCC---------------------------------------------------
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNV---------------------------------------------------  114 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------------------------  114 (344)
                      +..+..++.+.|++++|+..+....+...                                                   
T Consensus        70 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (388)
T d1w3ba_          70 YSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALG  149 (388)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTS
T ss_pred             HHHHHHHhhhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999999999999888765431                                                   


Q ss_pred             ----------------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHH
Q 038490          115 ----------------QMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEM  178 (344)
Q Consensus       115 ----------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (344)
                                      +.+...+..+...+...|+++.|...+++.....+.+..++..+...+...|++++|...+++.
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  229 (388)
T d1w3ba_         150 RLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRA  229 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHH
T ss_pred             hhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHh
Confidence                            1123455556667778899999999999988877778888999999999999999999999998


Q ss_pred             hhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 038490          179 VKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDA  258 (344)
Q Consensus       179 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  258 (344)
                      ...+. .+...+..+...+.+.|++++|...++++++..  +.+..++..+..++...|++++|...++......+ .+.
T Consensus       230 ~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~  305 (388)
T d1w3ba_         230 LSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ--PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THA  305 (388)
T ss_dssp             HHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCH
T ss_pred             HHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCC-ccc
Confidence            87643 366677778889999999999999999988753  45678899999999999999999999999988754 488


Q ss_pred             HHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHH
Q 038490          259 GIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKA-NPISYNVILGG  337 (344)
Q Consensus       259 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~ll~~  337 (344)
                      ..+..+...+...|++++|+..|++..+..+. +..++..+..++.+.|++++|...|++..+.  .| +...|..+..+
T Consensus       306 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~  382 (388)
T d1w3ba_         306 DSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNT  382 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            88999999999999999999999999876433 5678888999999999999999999999874  45 56789999999


Q ss_pred             HhhcCC
Q 038490          338 LCKDGK  343 (344)
Q Consensus       338 ~~~~g~  343 (344)
                      |.+.||
T Consensus       383 ~~~~~D  388 (388)
T d1w3ba_         383 LKEMQD  388 (388)
T ss_dssp             HHHTCC
T ss_pred             HHHcCC
Confidence            988886

>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=99.90  E-value=6.1e-21  Score=158.32  Aligned_cols=288  Identities=12%  Similarity=0.016  Sum_probs=243.5

Q ss_pred             chhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCC----
Q 038490            4 SSIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRI----   79 (344)
Q Consensus         4 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----   79 (344)
                      ....++.++.+.|++++|+..|+++...           .|.+..+|..+..++.+.|++++|+..+.........    
T Consensus        35 ~~~~la~~~~~~~~~~~A~~~~~~al~~-----------~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  103 (388)
T d1w3ba_          35 VLLLLSSIHFQCRRLDRSAHFSTLAIKQ-----------NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDG  103 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHhhhhccccccccccccccccccccccc
Confidence            4566788999999999999999997443           2337789999999999999999999998877653210    


Q ss_pred             --------------------------------------------------------------CCchhHHHHHHHHHHhcc
Q 038490           80 --------------------------------------------------------------VPKEIIFCNVIGFYGRAR   97 (344)
Q Consensus        80 --------------------------------------------------------------~~~~~~~~~l~~~~~~~~   97 (344)
                                                                                    +.+...+..+...+...|
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  183 (388)
T d1w3ba_         104 YINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQG  183 (388)
T ss_dssp             HHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccC
Confidence                                                                          011234555566777889


Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHH
Q 038490           98 LLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDE  177 (344)
Q Consensus        98 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (344)
                      ++++|...++...+.. +.+...+..+...+...|++++|...++......+.+...+..+...+.+.|++++|...|++
T Consensus       184 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  262 (388)
T d1w3ba_         184 EIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRR  262 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999998876 567888999999999999999999999999888888888899999999999999999999999


Q ss_pred             HhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 038490          178 MVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMD  257 (344)
Q Consensus       178 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  257 (344)
                      ..+.. +-+..++..+...+...|++++|...++......  +.+...+..+...+.+.|++++|+..+++..+..+. +
T Consensus       263 al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~  338 (388)
T d1w3ba_         263 AIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-F  338 (388)
T ss_dssp             HHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTT-C
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC--CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCC-C
Confidence            98874 3356788889999999999999999999987753  667888999999999999999999999999987654 7


Q ss_pred             HHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038490          258 AGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEED  308 (344)
Q Consensus       258 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  308 (344)
                      ..++..+..+|...|++++|...|++..+..+. +...|..+..+|.+.||
T Consensus       339 ~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         339 AAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCC
Confidence            888999999999999999999999999886432 56788889888888775

>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=99.80  E-value=1.5e-16  Score=128.52  Aligned_cols=231  Identities=9%  Similarity=-0.085  Sum_probs=148.0

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  129 (344)
                      +......+.+.|++++|+..|+++.+..  +-+..+|..+..++...|++++|...|++..+.. +-+...+..+..++.
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~   98 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFT   98 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccc
Confidence            3456778889999999999999998853  4457788889999999999999999999998876 567788888999999


Q ss_pred             hcCChHHHHHHHHHHhccCCCCcccHH---------------HHHHHHHhhCChhHHHHHHHHHhhCC-CCcCHhhHHHH
Q 038490          130 TCGKLDRMKELFQIMEKYVSPDACSYN---------------ILIHGCVVSRRLEDAWKVFDEMVKRR-LQPTLVTFGTL  193 (344)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~---------------~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l  193 (344)
                      ..|++++|...++......+.....+.               ..+..+...+.+.+|...+.+..... ..++...+..+
T Consensus        99 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l  178 (323)
T d1fcha_          99 NESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  178 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             ccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhh
Confidence            999999999999988765542222111               11122233344555555555544321 11233444445


Q ss_pred             HHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 038490          194 IYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGR  273 (344)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  273 (344)
                      ...+...|++++|+..+++.+...  +.+...+..+..++...|++++|.+.+++..+..+. +..++..+..+|.+.|+
T Consensus       179 ~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         179 GVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHCCC
Confidence            555555566666666665555432  233455555555556666666666666655554322 45555555556666666


Q ss_pred             cCcHHHHHHHHHH
Q 038490          274 KNEFPAILKEMKE  286 (344)
Q Consensus       274 ~~~a~~~~~~~~~  286 (344)
                      +++|+..|++..+
T Consensus       256 ~~~A~~~~~~al~  268 (323)
T d1fcha_         256 HREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666655544

>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=99.75  E-value=1.8e-15  Score=122.18  Aligned_cols=252  Identities=12%  Similarity=-0.023  Sum_probs=204.9

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .....+.+.|++++|+..|+++++.. |-+..+|..+..++...|++++|...|++..+..+.+...+..+...|...|+
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            45667789999999999999999886 66788999999999999999999999999998888888899999999999999


Q ss_pred             hhHHHHHHHHHhhCCCCc--------------CHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490          168 LEDAWKVFDEMVKRRLQP--------------TLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGL  233 (344)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  233 (344)
                      +++|.+.+++........              +.......+..+...+.+.++...+.++++......+..++..+...+
T Consensus       103 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~  182 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLF  182 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHH
Confidence            999999999987652110              011122234466778889999999999887755556778888999999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHH
Q 038490          234 CAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAF  313 (344)
Q Consensus       234 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  313 (344)
                      ...|++++|...+++.....+. +...|..+...|...|++++|.+.|++..+.... +...|..+..+|.+.|++++|+
T Consensus       183 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~  260 (323)
T d1fcha_         183 NLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAV  260 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999999887654 7889999999999999999999999999887433 6778899999999999999999


Q ss_pred             HHHHHHhhC----------CCCCChhhHHHHHHHHhhcC
Q 038490          314 TILDEMGDK----------GCKANPISYNVILGGLCKDG  342 (344)
Q Consensus       314 ~~~~~~~~~----------~~~p~~~~~~~ll~~~~~~g  342 (344)
                      ..|++.++.          ........|..+-.++...|
T Consensus       261 ~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~  299 (323)
T d1fcha_         261 EHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLG  299 (323)
T ss_dssp             HHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcC
Confidence            999998641          22223445555555554444

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.7e-11  Score=97.72  Aligned_cols=230  Identities=7%  Similarity=0.009  Sum_probs=175.2

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcc-cHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRAR-LLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      ..+++.+...+.+.+.+++|+++++++.+..  +-+...|+....++...+ ++++|+..++...+.. +-+..+|..+.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            5677778888999999999999999999853  445677888888888776 5899999999999887 67789999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhh-----
Q 038490          126 NPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLE-----  200 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  200 (344)
                      .++.+.|++++|+..++++.+..+.+..+|..+...+.+.|++++|++.++++.+.+.. +...|+.+...+.+.     
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            99999999999999999999988889999999999999999999999999999987433 566676655554443     


Q ss_pred             -chHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHc--CCcCc
Q 038490          201 -LRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM-DAGIYSSLISALFKA--GRKNE  276 (344)
Q Consensus       201 -~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~--g~~~~  276 (344)
                       +.+++|+..+..+++..  +.+...|..+...+. ....+++.+.++...+....+ +...+..++..|...  +..+.
T Consensus       199 ~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~  275 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDN  275 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             hhhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHH
Confidence             34678888888877753  446667766655543 444677777777776644332 445556666665442  44455


Q ss_pred             HHHHHHH
Q 038490          277 FPAILKE  283 (344)
Q Consensus       277 a~~~~~~  283 (344)
                      +...+++
T Consensus       276 ~~~~~~k  282 (315)
T d2h6fa1         276 KEDILNK  282 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5544443

>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=99.51  E-value=1.7e-11  Score=97.71  Aligned_cols=249  Identities=8%  Similarity=0.055  Sum_probs=191.5

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHhccCCCCcccHHHHHHH
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG-KLDRMKELFQIMEKYVSPDACSYNILIHG  161 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  161 (344)
                      ...++.+...+.+.+..++|+++++++++.+ |-+..+|+....++...| ++++|+..++......+.+..+|..+...
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            4566677778888999999999999999987 777889999999988876 58999999999999888999999999999


Q ss_pred             HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---
Q 038490          162 CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE---  238 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  238 (344)
                      +.+.|++++|+..++++.+... -+...|..+...+...|++++|+..++.+++..  +.+...|+.+...+.+.+.   
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998743 368889999999999999999999999998864  4567788877777766665   


Q ss_pred             ---hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCC-ChhhHHHHHHHHhcc--------
Q 038490          239 ---LSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKP-NSVTYNALISGFCKE--------  306 (344)
Q Consensus       239 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~--------  306 (344)
                         +++|...+....+..+. +...|+.+...+.. ...+++...++...+....+ +...+..++..|...        
T Consensus       199 ~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence               57899999998887654 78888877666554 44688888888887764333 334455566665432        


Q ss_pred             -CCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHH
Q 038490          307 -EDFEAAFTILDEMGDKGCKA-NPISYNVILGGL  338 (344)
Q Consensus       307 -~~~~~a~~~~~~~~~~~~~p-~~~~~~~ll~~~  338 (344)
                       ..+++|..+++.+.+. +.| ...-|..+.+.+
T Consensus       277 ~~~~~ka~~l~~~l~~~-~DpiR~~yw~~~~~~l  309 (315)
T d2h6fa1         277 EDILNKALELCEILAKE-KDTIRKEYWRYIGRSL  309 (315)
T ss_dssp             HHHHHHHHHHHHHHHHT-TCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHH
Confidence             2355666666665543 233 223355554443

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.47  E-value=5.6e-11  Score=94.59  Aligned_cols=220  Identities=9%  Similarity=0.047  Sum_probs=152.4

Q ss_pred             chHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh--------------cccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038490           63 FDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR--------------ARLLERALQMFDEMSSFNVQMTVKFFNTLLNPK  128 (344)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  128 (344)
                      .+++..+|+++...  .+-+...|..-+..+..              .+..++|..+|++..+...+.+...|..++...
T Consensus        32 ~~Rv~~vyerAl~~--~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~  109 (308)
T d2onda1          32 TKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            34566778887765  34455566554444322              334577888888887655456667778888888


Q ss_pred             HhcCChHHHHHHHHHHhccCCCC-cccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHH-HHHhhchHHHH
Q 038490          129 LTCGKLDRMKELFQIMEKYVSPD-ACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIY-GLCLELRVDEA  206 (344)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a  206 (344)
                      ...|+++.|..+|+.+....+.+ ...|...+..+.+.|+.+.|.++|+++.+.+.. +...|..... -+...|+.+.|
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a  188 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHH
Confidence            88888888888888887765533 346788888888888888888888888776432 3333333332 23345778888


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHHcCCcCcHHHHHHH
Q 038490          207 LKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI-EM--DAGIYSSLISALFKAGRKNEFPAILKE  283 (344)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~  283 (344)
                      ..+|+.+++..  +.+...+...+....+.|+++.|..+|++...... .|  ....|...+..-...|+.+.+..++++
T Consensus       189 ~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r  266 (308)
T d2onda1         189 FKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888877653  55677788888888888888888888888777532 22  245677777777778888888888887


Q ss_pred             HHHc
Q 038490          284 MKER  287 (344)
Q Consensus       284 ~~~~  287 (344)
                      +.+.
T Consensus       267 ~~~~  270 (308)
T d2onda1         267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7664

>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=99.43  E-value=2.8e-12  Score=99.63  Aligned_cols=128  Identities=7%  Similarity=-0.147  Sum_probs=66.8

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ..+|..+..+|.+.|++++|++.|++..+..  +-+..+|..+..++.+.|++++|+..|+++.+.. +.+..++..+..
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~  113 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  113 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccC--CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHH
Confidence            3445555556666666666666666655531  3334555556666666666666666666665554 334445555555


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHH
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDE  177 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (344)
                      ++...|+++.|...|+...+..+.+......+..++.+.+..+.+..+...
T Consensus       114 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (259)
T d1xnfa_         114 ALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  164 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            555666666666666555554443333333333333444443333333333

>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=99.42  E-value=1.5e-10  Score=93.68  Aligned_cols=273  Identities=11%  Similarity=-0.005  Sum_probs=196.9

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-----hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-CC----
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-----EIIFCNVIGFYGRARLLERALQMFDEMSSFNV-QM----  116 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----  116 (344)
                      ..........+...|++++|++++++.....  +.+     ...+..+..++...|++++|...|+...+... .+    
T Consensus        12 ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~   89 (366)
T d1hz4a_          12 AEFNALRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHY   89 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHH
Confidence            3445556677889999999999999987742  222     23566788899999999999999998875320 11    


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccC----CCC----cccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCC
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYV----SPD----ACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQ  184 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~  184 (344)
                      ....+..+...+...|++..+...+.......    .+.    ...+..+...+...|+++.+...+......    +..
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  169 (366)
T d1hz4a_          90 ALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQ  169 (366)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhh
Confidence            13456667778889999999999888764321    111    124556677888999999999999887654    222


Q ss_pred             cCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---
Q 038490          185 PTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD-----GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEM---  256 (344)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---  256 (344)
                      .....+......+...++...+...+.+..........     ...+..+...+...|++++|...++.........   
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  249 (366)
T d1hz4a_         170 QQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHF  249 (366)
T ss_dssp             GGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGG
T ss_pred             hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchH
Confidence            23344555666777889999988888776543322211     2345566677889999999999998877643322   


Q ss_pred             CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc----CCCCC-hhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          257 DAGIYSSLISALFKAGRKNEFPAILKEMKER----GCKPN-SVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       257 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      ....+..+..++...|++++|...+++....    +..|+ ...+..+...|.+.|++++|.+.+++..+
T Consensus       250 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         250 LQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             GHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3455667888999999999999999987542    33333 35677788899999999999999998754

>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=99.42  E-value=7.9e-12  Score=96.98  Aligned_cols=148  Identities=11%  Similarity=-0.053  Sum_probs=108.0

Q ss_pred             chHHHHHHHHhhhcCCCCC--chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 038490           63 FDEMQQILHQLKHDTRIVP--KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKEL  140 (344)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  140 (344)
                      .+.++.-+++........+  ...++..+..+|.+.|++++|++.|++.++.. +-+..+|..+..++...|++++|...
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3445555555554322222  23466777888999999999999999999876 66788899999999999999999999


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHH
Q 038490          141 FQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKED  212 (344)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (344)
                      |+++.+..+.+..++..+..+|...|++++|...|++..+... .+......+...+.+.+..+.+..+...
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQH  164 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            9999888877788888899999999999999999999887632 2344333334444555555555555444

>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=99.42  E-value=2.3e-11  Score=96.84  Aligned_cols=222  Identities=11%  Similarity=0.093  Sum_probs=172.8

Q ss_pred             chHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhc--------------CCchHHHHHHHHhhhcCCCCCch
Q 038490           18 PKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRA--------------KMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus        18 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      .+++..+|+++.           ...+.+...|...+..+.+.              +..++|..+|++..... .+.+.
T Consensus        32 ~~Rv~~vyerAl-----------~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~-~p~~~   99 (308)
T d2onda1          32 TKRVMFAYEQCL-----------LVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTL-LKKNM   99 (308)
T ss_dssp             HHHHHHHHHHHH-----------HHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTT-TTTCH
T ss_pred             HHHHHHHHHHHH-----------HHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHc-CCCCH
Confidence            455677777762           23344677777766655432              34578899999988642 34455


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHH-H
Q 038490           84 IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHG-C  162 (344)
Q Consensus        84 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~  162 (344)
                      ..+...+......|+++.|..+|+.+++........+|..++....+.|+.+.|..+|+++....+.+...|...... +
T Consensus       100 ~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~  179 (308)
T d2onda1         100 LLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEY  179 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            677888888999999999999999999865333356799999999999999999999999998877666666555544 3


Q ss_pred             HhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChH
Q 038490          163 VVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPD--GQVFASLIKGLCAVGELS  240 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~  240 (344)
                      ...|+.+.|..+|+.+.+. .+.+...|...+....+.|+.+.|..+|++.++..+..|.  ...|...+..-...|+.+
T Consensus       180 ~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~  258 (308)
T d2onda1         180 YCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  258 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHH
T ss_pred             HhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHH
Confidence            4468999999999999886 3446778888999999999999999999998886555543  567888888888899999


Q ss_pred             HHHHHHHHHHHC
Q 038490          241 LALGVKEEMVRD  252 (344)
Q Consensus       241 ~a~~~~~~~~~~  252 (344)
                      .+..+++++.+.
T Consensus       259 ~~~~~~~r~~~~  270 (308)
T d2onda1         259 SILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988764

>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=99.38  E-value=3.1e-11  Score=97.95  Aligned_cols=275  Identities=11%  Similarity=0.018  Sum_probs=193.8

Q ss_pred             hhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc----
Q 038490            7 RLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK----   82 (344)
Q Consensus         7 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----   82 (344)
                      ..+.++...|++++|+++|++.....+.      ........++..+..++...|++++|...+++..+.....++    
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~~~------~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   90 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEELPP------GWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYA   90 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCT------TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcC------CCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHH
Confidence            3467788999999999999986443210      111112456788899999999999999999987653111122    


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhc----CCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC-----C
Q 038490           83 EIIFCNVIGFYGRARLLERALQMFDEMSSF----NVQM---TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS-----P  150 (344)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~  150 (344)
                      ...+..+...+...|++..+...+......    +...   ....+..+...+...|+++.+...+........     .
T Consensus        91 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  170 (366)
T d1hz4a_          91 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ  170 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhh
Confidence            234556778888999999999999887642    1111   123566677888999999999999988766543     1


Q ss_pred             CcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CCCcC--HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCC--CCC
Q 038490          151 DACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RLQPT--LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNV--KPD  222 (344)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~  222 (344)
                      ...++......+...++...+...+.+....    +..+.  ...+......+...|+++.|...+....+....  ...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  250 (366)
T d1hz4a_         171 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  250 (366)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHH
Confidence            2334455667788889999998888776542    11111  223455566778899999999999876543211  122


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          223 GQVFASLIKGLCAVGELSLALGVKEEMVR----DKIEM-DAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       223 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      ...+..+..++...|++++|...++....    .+..| ....+..+...|...|++++|.+.+++..+.
T Consensus       251 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         251 QGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            44566788899999999999999998864    23333 3456788889999999999999999987653

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.30  E-value=2.4e-11  Score=97.97  Aligned_cols=272  Identities=8%  Similarity=-0.056  Sum_probs=196.9

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch-hHHHHHH---H-------HHHhcccHHHHHHHHHHHHhcCCCCCH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE-IIFCNVI---G-------FYGRARLLERALQMFDEMSSFNVQMTV  118 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~---~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~  118 (344)
                      ...++......+..++|++++++....   .|+. ..|+..-   .       .+...+++++|+..++...+.+ +.+.
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~  107 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSY  107 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcH
Confidence            333444444444568999999999875   3554 3443322   2       2334567899999999999876 6678


Q ss_pred             HHHHHHHHHHHhcC--ChHHHHHHHHHHhccCCCCcccHHH-HHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHH
Q 038490          119 KFFNTLLNPKLTCG--KLDRMKELFQIMEKYVSPDACSYNI-LIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIY  195 (344)
Q Consensus       119 ~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  195 (344)
                      ..|..+..++...+  ++++|...++++....+.+...+.. ....+...+.++.|+..++++...+.. +...|..+..
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~  186 (334)
T d1dcea1         108 GTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHH
Confidence            88888877777665  5899999999998887777777654 446777889999999999999887543 6778888888


Q ss_pred             HHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcC
Q 038490          196 GLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKN  275 (344)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  275 (344)
                      .+.+.|++++|...+....+..   |.   ...+...+...+..+++...+.......+. +...+..+...+...|+.+
T Consensus       187 ~~~~~~~~~~A~~~~~~~~~~~---~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~-~~~~~~~l~~~~~~~~~~~  259 (334)
T d1dcea1         187 LLPQLHPQPDSGPQGRLPENVL---LK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAE-PLFRCELSVEKSTVLQSEL  259 (334)
T ss_dssp             HHHHHSCCCCSSSCCSSCHHHH---HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCC-CSSSCCCCHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHhHHhH---HH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcc-hhhHHHHHHHHHHHHhhHH
Confidence            8999999888776665543321   11   112233455667778888888888876543 5666677778888889999


Q ss_pred             cHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCCCCCh-hhHHHHHH
Q 038490          276 EFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGCKANP-ISYNVILG  336 (344)
Q Consensus       276 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~  336 (344)
                      +|...+.+....++. +...+..+..++...|+.++|...+++..+.  .|+. .-|..|-.
T Consensus       260 ~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~  318 (334)
T d1dcea1         260 ESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRS  318 (334)
T ss_dssp             HHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHH
Confidence            999999988776432 5677788888999999999999999999884  5643 34454433

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.30  E-value=2.9e-12  Score=103.50  Aligned_cols=267  Identities=8%  Similarity=-0.113  Sum_probs=193.5

Q ss_pred             ccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHh----------cCCchHHHHHHHHhhhcCCCCCch
Q 038490           14 LQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGR----------AKMFDEMQQILHQLKHDTRIVPKE   83 (344)
Q Consensus        14 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~~~~~~~   83 (344)
                      ..+..++|+++++.+...           .|-+..+|+..-..+..          .|++++|+..++...+..  +-+.
T Consensus        41 ~~~~~~~al~~~~~~l~~-----------~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~--pk~~  107 (334)
T d1dcea1          41 AGELDESVLELTSQILGA-----------NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKSY  107 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH-----------CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC--TTCH
T ss_pred             cccccHHHHHHHHHHHHH-----------CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC--CCcH
Confidence            334558999999987433           22266667554444333          345789999999988753  4456


Q ss_pred             hHHHHHHHHHHhcc--cHHHHHHHHHHHHhcCCCCCHHHHHH-HHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           84 IIFCNVIGFYGRAR--LLERALQMFDEMSSFNVQMTVKFFNT-LLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        84 ~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      ..+..+..++...+  ++++|...+..+.+.. +++...+.. ....+...+.++.|...++.+....+.+..+|+.+..
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~  186 (334)
T d1dcea1         108 GTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            67777766666655  5899999999999876 566666654 4467778899999999999999998889999999999


Q ss_pred             HHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 038490          161 GCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELS  240 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  240 (344)
                      ++.+.|++++|...+++..+.  .|+.   ......+...+..+++...+.......  +++...+..+...+...++.+
T Consensus       187 ~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~--~~~~~~~~~l~~~~~~~~~~~  259 (334)
T d1dcea1         187 LLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGR--AEPLFRCELSVEKSTVLQSEL  259 (334)
T ss_dssp             HHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC--CCCSSSCCCCHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhC--cchhhHHHHHHHHHHHHhhHH
Confidence            999999998887666554433  1111   122334455667777887777766543  444555666677778889999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCC-hhhHHHHHHHHh
Q 038490          241 LALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPN-SVTYNALISGFC  304 (344)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~  304 (344)
                      +|...+.+..+..+. +...+..+...+...|+.++|.+.+++..+.  .|+ ...|..+...+.
T Consensus       260 ~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         260 ESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence            999999988877544 6778888999999999999999999999887  454 344555544444

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=6.7e-09  Score=81.52  Aligned_cols=238  Identities=11%  Similarity=0.023  Sum_probs=142.2

Q ss_pred             HHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038490           65 EMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIM  144 (344)
Q Consensus        65 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  144 (344)
                      ++.+++++..+.  .+|....+..+..  ....++++|..+|..+               ..+|...+++++|...|.+.
T Consensus         3 ~~~~~l~~aek~--~~~~~~~~~~~~~--~~~~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA   63 (290)
T d1qqea_           3 DPVELLKRAEKK--GVPSSGFMKLFSG--SDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKA   63 (290)
T ss_dssp             CHHHHHHHHHHH--SSCCCTHHHHHSC--CSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHh--cCcchhHHHHhcC--CccccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHH
Confidence            456666666554  2444332221111  2233456666655543               45567777777777777766


Q ss_pred             hccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhC----CC-CcCHhhHHHHHHHHHh-hchHHHHHHHHHH
Q 038490          145 EKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKR----RL-QPTLVTFGTLIYGLCL-ELRVDEALKLKED  212 (344)
Q Consensus       145 ~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~  212 (344)
                      .+...      ....+|..+..+|.+.|++++|...+++..+.    |. .....++..+...|.. .|++++|+..+++
T Consensus        64 ~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~  143 (290)
T d1qqea_          64 ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYEL  143 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHH
Confidence            44311      12346777778888888888888888776442    11 1113344455555543 5888888888887


Q ss_pred             HHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHHcCCcCcHHHHHH
Q 038490          213 IMRVYNVKPD----GQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDA------GIYSSLISALFKAGRKNEFPAILK  282 (344)
Q Consensus       213 ~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~  282 (344)
                      ..+......+    ..++..+...+...|++++|...++++.........      ..+...+..+...|+++.|...++
T Consensus       144 A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~  223 (290)
T d1qqea_         144 AGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            6543211111    345777888889999999999999988775332111      223445556777889999999988


Q ss_pred             HHHHcCCC-CC---hhhHHHHHHHHhc--cCCHHHHHHHHHHHhh
Q 038490          283 EMKERGCK-PN---SVTYNALISGFCK--EEDFEAAFTILDEMGD  321 (344)
Q Consensus       283 ~~~~~~~~-p~---~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~  321 (344)
                      +..+..+. ++   ......++.++..  .+.+++|+..|+++.+
T Consensus       224 ~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         224 EGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             GGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            88665321 12   2234556666554  3457888887776553

>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=98.97  E-value=6.2e-08  Score=70.67  Aligned_cols=130  Identities=8%  Similarity=-0.054  Sum_probs=99.0

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      ..|+. ...+...|++++|++.|.++     .+|+..++..+..+|...|++++|++.|++.++.+ +.....|..+..+
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~   79 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   79 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHH
Confidence            34543 56678889999999988764     24677788889999999999999999999999887 6678889999999


Q ss_pred             HHhcCChHHHHHHHHHHhccCCCC----------------cccHHHHHHHHHhhCChhHHHHHHHHHhhCCCC
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSPD----------------ACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQ  184 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  184 (344)
                      +.+.|++++|...|++.....+.+                ..++..+..++.+.|++++|.+.++........
T Consensus        80 ~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          80 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            999999999999888876432211                123445666777888888888888777665433

>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=98.89  E-value=6.7e-08  Score=64.23  Aligned_cols=96  Identities=9%  Similarity=-0.015  Sum_probs=50.4

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG  132 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  132 (344)
                      -...+.+.|++++|+..|++..+..  +.+...|..+..++...|++++|+..++...+.+ +.+...|..+..++...|
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHcc
Confidence            3444555555555555555555432  3334445555555555555555555555555544 444555555555555555


Q ss_pred             ChHHHHHHHHHHhccCCCC
Q 038490          133 KLDRMKELFQIMEKYVSPD  151 (344)
Q Consensus       133 ~~~~a~~~~~~~~~~~~~~  151 (344)
                      ++++|...|++..+..|.+
T Consensus        86 ~~~~A~~~~~~a~~~~p~~  104 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANN  104 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTC
T ss_pred             CHHHHHHHHHHHHHhCCCC
Confidence            5555555555555444333

>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=98.85  E-value=2.2e-07  Score=67.67  Aligned_cols=123  Identities=10%  Similarity=-0.077  Sum_probs=75.0

Q ss_pred             HHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 038490          159 IHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE  238 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  238 (344)
                      ...+...|+++.|++.|+++    .+|+..+|..+..++...|++++|+..|++.++..  +.+...|..+..++.+.|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhcc
Confidence            34556667777777777653    23455666666777777777777777777766653  4456667777777777777


Q ss_pred             hHHHHHHHHHHHHCCCCCC---------------HHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          239 LSLALGVKEEMVRDKIEMD---------------AGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +++|...|++.........               ..++..+..++.+.|++++|.+.+......
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            7777777777665321100               133444555555666666666666555544

>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=98.85  E-value=1e-07  Score=74.59  Aligned_cols=165  Identities=6%  Similarity=-0.034  Sum_probs=87.8

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHhhhcC---CCCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhc----C-CCCCHH
Q 038490           49 HYDLIITKLGRAKMFDEMQQILHQLKHDT---RIVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSF----N-VQMTVK  119 (344)
Q Consensus        49 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~  119 (344)
                      .|......|...|++++|.+.|.+.....   +-++ -..+|..+..+|.+.|++++|.+.++...+.    | ......
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            45666667777777888877777765421   1111 1345666777777777777777777766532    1 001123


Q ss_pred             HHHHHHHHHHh-cCChHHHHHHHHHHhccCC------CCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCH-----
Q 038490          120 FFNTLLNPKLT-CGKLDRMKELFQIMEKYVS------PDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTL-----  187 (344)
Q Consensus       120 ~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----  187 (344)
                      ++..+...|.. .|++++|...+++..+...      ....++..+...+...|++++|...|+++.........     
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            44445545533 4667777666665543211      01233555566666666666666666665543211110     


Q ss_pred             -hhHHHHHHHHHhhchHHHHHHHHHHH
Q 038490          188 -VTFGTLIYGLCLELRVDEALKLKEDI  213 (344)
Q Consensus       188 -~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (344)
                       ..+...+..+...|+++.|...+++.
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~  225 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEG  225 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence             11122223344556666666666554

>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=98.83  E-value=1.1e-07  Score=67.11  Aligned_cols=91  Identities=11%  Similarity=0.058  Sum_probs=54.0

Q ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChh
Q 038490           90 IGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLE  169 (344)
Q Consensus        90 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (344)
                      ...|.+.|++++|+..|++.++.+ +.+...|..+..++...|++++|...|++..+..+.+..+|..+..++...|+++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHH
Confidence            344555666666666666666554 4455556666666666666666666666665555555555666666666666666


Q ss_pred             HHHHHHHHHhhC
Q 038490          170 DAWKVFDEMVKR  181 (344)
Q Consensus       170 ~a~~~~~~~~~~  181 (344)
                      +|...+++....
T Consensus        96 eA~~~~~~a~~~  107 (159)
T d1a17a_          96 AALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            666666665554

>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=98.83  E-value=1.2e-07  Score=62.97  Aligned_cols=92  Identities=13%  Similarity=0.042  Sum_probs=70.2

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCCh
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRL  168 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (344)
                      -...+...|++++|+..|++.++.. |.+...|..+..++...|++++|...+.......+.+...|..+..++...|++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            4556667788888888888877766 666777777777777888888888888777777777777777777778888888


Q ss_pred             hHHHHHHHHHhhC
Q 038490          169 EDAWKVFDEMVKR  181 (344)
Q Consensus       169 ~~a~~~~~~~~~~  181 (344)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888777765

>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=98.82  E-value=2e-07  Score=65.68  Aligned_cols=101  Identities=14%  Similarity=0.075  Sum_probs=56.9

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038490           50 YDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKL  129 (344)
Q Consensus        50 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  129 (344)
                      +......+.+.|++++|+..|++..+..  +.+...|..+..+|...|++++|.+.|+..++.. +.+..+|..+..++.
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHH
Confidence            3444455556666666666666655542  3344555555566666666666666666665554 444555666666666


Q ss_pred             hcCChHHHHHHHHHHhccCCCCcc
Q 038490          130 TCGKLDRMKELFQIMEKYVSPDAC  153 (344)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~  153 (344)
                      ..|++++|...+++.....+.+..
T Consensus        90 ~~g~~~eA~~~~~~a~~~~p~~~~  113 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKVKPHDKD  113 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHH
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCHH
Confidence            666666666666665554443333

>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=98.80  E-value=2.8e-08  Score=73.24  Aligned_cols=99  Identities=13%  Similarity=0.006  Sum_probs=61.6

Q ss_pred             chhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490           46 NLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLL  125 (344)
Q Consensus        46 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  125 (344)
                      +...+......+.+.|++++|+..|++.....  +.+...|..+..+|.+.|++++|+..|+..++.. +-+..+|..+.
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            45555556666666666666666666665542  3445566666666666666666666666666554 34455666666


Q ss_pred             HHHHhcCChHHHHHHHHHHhcc
Q 038490          126 NPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus       126 ~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      .+|...|++++|...|++....
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            6666666666666666665443

>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=98.78  E-value=7.5e-08  Score=70.85  Aligned_cols=99  Identities=7%  Similarity=-0.055  Sum_probs=84.0

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHH
Q 038490           81 PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIH  160 (344)
Q Consensus        81 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  160 (344)
                      |+...+......+.+.|++++|+..|++.+... |.+..+|..+..+|.+.|+++.|...|+...+..+.+..+|..+..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHH
Confidence            666777778888888999999999998888876 6778888888888999999999999998888877777788888888


Q ss_pred             HHHhhCChhHHHHHHHHHhh
Q 038490          161 GCVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~  180 (344)
                      +|.+.|++++|+..|++..+
T Consensus        81 ~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            88889999999888888765

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.70  E-value=2.5e-05  Score=59.61  Aligned_cols=63  Identities=13%  Similarity=0.086  Sum_probs=35.5

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHh----cccHHHHHHHHHHHHhcC
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGR----ARLLERALQMFDEMSSFN  113 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  113 (344)
                      +..+..+...+.+.+++++|++.|++..+.+    +...+..|...|..    ..+...|...+......+
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            4455556666666666666666666665531    34444445555543    445666666666655544

>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=98.68  E-value=1.4e-07  Score=62.11  Aligned_cols=90  Identities=4%  Similarity=-0.073  Sum_probs=50.1

Q ss_pred             HHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 038490           52 LIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTC  131 (344)
Q Consensus        52 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  131 (344)
                      .+...+.+.|++++|+..|++.....  +-+...|..+..++.+.|++++|+..|+...+.. |.+..++..+..+|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            34455555566666666666655532  2234555555555566666666666666555554 44455555555555555


Q ss_pred             CChHHHHHHHHHH
Q 038490          132 GKLDRMKELFQIM  144 (344)
Q Consensus       132 ~~~~~a~~~~~~~  144 (344)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            5555555555543

>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=98.65  E-value=3.4e-05  Score=58.84  Aligned_cols=227  Identities=11%  Similarity=-0.027  Sum_probs=163.4

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHhccCCCCcccHHH
Q 038490           82 KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLT----CGKLDRMKELFQIMEKYVSPDACSYNI  157 (344)
Q Consensus        82 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (344)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+  +......
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~--~~~a~~~   75 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCHL   75 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc--ccchhhc
Confidence            35567778888889999999999999998876   55666667777776    568999999999887654  3344444


Q ss_pred             HHHHHHh----hCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHH----hhchHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490          158 LIHGCVV----SRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLC----LELRVDEALKLKEDIMRVYNVKPDGQVFASL  229 (344)
Q Consensus       158 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  229 (344)
                      +...+..    ..+.+.|...++...+.|....   ...+...+.    .......+...+.....    ..+...+..+
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a---~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L  148 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYAEG---CASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHH---HHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhhhH---HHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhh
Confidence            5444443    4577889999999888764322   222322222    24467777777776443    4566777778


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCcCcHHHHHHHHHHcCCCCChhhHHHHHH
Q 038490          230 IKGLCA----VGELSLALGVKEEMVRDKIEMDAGIYSSLISALFK----AGRKNEFPAILKEMKERGCKPNSVTYNALIS  301 (344)
Q Consensus       230 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  301 (344)
                      ...+..    ..+...+...++...+.|   +......+...|..    ..++++|+..|.+..+.|   ++..+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            777775    456778888888888765   66677777777766    567889999999998886   4566667777


Q ss_pred             HHhc----cCCHHHHHHHHHHHhhCCCCC
Q 038490          302 GFCK----EEDFEAAFTILDEMGDKGCKA  326 (344)
Q Consensus       302 ~~~~----~~~~~~a~~~~~~~~~~~~~p  326 (344)
                      .|.+    ..+.++|.++|++..+.|..+
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            7765    448899999999999887543

>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=98.58  E-value=3.5e-07  Score=60.08  Aligned_cols=91  Identities=9%  Similarity=-0.089  Sum_probs=84.0

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCC
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRR  167 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (344)
                      .+...+.+.|++++|+..|++..+.. +-+..+|..+..++.+.|++++|...|++..+..|.+..+|..+...|...|+
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            45667889999999999999999987 66789999999999999999999999999999988899999999999999999


Q ss_pred             hhHHHHHHHHHh
Q 038490          168 LEDAWKVFDEMV  179 (344)
Q Consensus       168 ~~~a~~~~~~~~  179 (344)
                      +++|.+.+++.+
T Consensus       100 ~~~A~~~l~~~l  111 (112)
T d1hxia_         100 ANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999864

>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=98.58  E-value=2e-06  Score=61.07  Aligned_cols=112  Identities=8%  Similarity=-0.113  Sum_probs=66.0

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNP  127 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  127 (344)
                      ..+......+.+.|++++|+..|++........+....            .   -......+       ...+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~------------~---~~~~~~~~-------~~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSN------------E---EAQKAQAL-------RLASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCS------------H---HHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccch------------H---HHhhhchh-------HHHHHHHHHHH
Confidence            34555667788888999999988887754211111000            0   00000000       01245556666


Q ss_pred             HHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          128 KLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       128 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      |.+.|++++|...++......|.+..++..+..+|...|++++|...|++..+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            666777777777777666666666666666677777777777777777776654

>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=98.55  E-value=8.6e-05  Score=58.17  Aligned_cols=267  Identities=12%  Similarity=0.047  Sum_probs=162.2

Q ss_pred             hhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            6 IRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         6 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      ..++..+.+.|.++.|..+|..+.                   -|..++..+.+.++++.|.+.+.+..       +..+
T Consensus        18 ~~i~~~c~~~~lye~A~~lY~~~~-------------------d~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~   71 (336)
T d1b89a_          18 QQVGDRCYDEKMYDAAKLLYNNVS-------------------NFGRLASTLVHLGEYQAAVDGARKAN-------STRT   71 (336)
T ss_dssp             -----------CTTTHHHHHHHTT-------------------CHHHHHHHHHTTTCHHHHHHHHHHHT-------CHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCC-------------------CHHHHHHHHHhhccHHHHHHHHHHcC-------CHHH
Confidence            456778888999999999997762                   26778888899999999888776542       4567


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      |..+...+.+......+     .+..............++..|-..|.+++...+++........+...++.++..|++.
T Consensus        72 ~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          72 WKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHh
Confidence            88888888777666443     2223333456666778899999999999999999988765557777888899988886


Q ss_pred             CChhHHHHHHHHHhhCCCCcC--------HhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490          166 RRLEDAWKVFDEMVKRRLQPT--------LVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVG  237 (344)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  237 (344)
                      + .++.++.+...... ..+.        ...|..++-.|.+.|.++.|..+.   +..   +++..-....+..+.+..
T Consensus       147 ~-~~kl~e~l~~~s~~-y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~---~~~~~~~~~f~e~~~k~~  218 (336)
T d1b89a_         147 K-PQKMREHLELFWSR-VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH---PTDAWKEGQFKDIITKVA  218 (336)
T ss_dssp             C-HHHHHHHHHHHSTT-SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS---TTTTCCHHHHHHHHHHCS
T ss_pred             C-hHHHHHHHHhcccc-CCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc---chhhhhHHHHHHHHHccC
Confidence            4 34444444333211 1111        112344445555566666655544   222   223223344555666777


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHH-----------HHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 038490          238 ELSLALGVKEEMVRDKIEMDAG-----------IYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKE  306 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  306 (344)
                      +++...++.....+..  |+..           ....++..+.+.+++.-....++.....|   +....+++...|...
T Consensus       219 N~e~~~~~i~~yL~~~--p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~  293 (336)
T d1b89a_         219 NVELYYRAIQFYLEFK--PLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITE  293 (336)
T ss_dssp             STHHHHHHHHHHHHHC--GGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHcC--HHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCc
Confidence            7766666666555431  2111           01335555666777777777777766554   456888899999999


Q ss_pred             CCHHHHHHHH
Q 038490          307 EDFEAAFTIL  316 (344)
Q Consensus       307 ~~~~~a~~~~  316 (344)
                      ++++.-....
T Consensus       294 ~d~~~l~~~i  303 (336)
T d1b89a_         294 EDYQALRTSI  303 (336)
T ss_dssp             TCHHHHHHHH
T ss_pred             chhHHHHHHH
Confidence            9876544443

>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=98.55  E-value=3.7e-06  Score=59.62  Aligned_cols=78  Identities=10%  Similarity=-0.090  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +|+.+..+|.+.|++++|+..++..++.++. ++..+..+..+|...|++++|+..|++..+..+. |......+-....
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  141 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQ  141 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            5667788888999999999999998887654 7888888899999999999999999998887432 4444444444433

>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=98.52  E-value=1.1e-06  Score=58.47  Aligned_cols=93  Identities=11%  Similarity=-0.038  Sum_probs=51.1

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHhccCC-CC-cccHHHHHHHH
Q 038490           88 NVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGK---LDRMKELFQIMEKYVS-PD-ACSYNILIHGC  162 (344)
Q Consensus        88 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~-~~-~~~~~~l~~~~  162 (344)
                      .+++.+...+++++|++.|+..+..+ +.+..++..+..++.+.++   +++|..+++++....+ ++ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            34555555666666666666666655 5555556666665554333   3345555655554433 11 23455555666


Q ss_pred             HhhCChhHHHHHHHHHhhC
Q 038490          163 VVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~  181 (344)
                      .+.|++++|.+.|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6666666666666666554

>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=98.49  E-value=1.4e-06  Score=57.91  Aligned_cols=94  Identities=6%  Similarity=-0.064  Sum_probs=51.0

Q ss_pred             HHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 038490          192 TLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGE---LSLALGVKEEMVRDKIEMD-AGIYSSLISA  267 (344)
Q Consensus       192 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~  267 (344)
                      .++..+...+++++|.+.|++.+...  +.+..++..+..++.+.++   +++|+.+++++...+..|+ ..++..+..+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            34455555666666666666655542  3445555555555554333   3346666666555443322 2345555566


Q ss_pred             HHHcCCcCcHHHHHHHHHHc
Q 038490          268 LFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       268 ~~~~g~~~~a~~~~~~~~~~  287 (344)
                      |.+.|++++|+..|+++.+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            66666666666666666554

>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=98.40  E-value=2.1e-07  Score=78.60  Aligned_cols=224  Identities=10%  Similarity=-0.070  Sum_probs=115.0

Q ss_pred             HHHHHHHHhhhcCCCCCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHH
Q 038490           65 EMQQILHQLKHDTRIVPK-EIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTV-KFFNTLLNPKLTCGKLDRMKELFQ  142 (344)
Q Consensus        65 ~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~  142 (344)
                      +|.+.|++..+.   +|+ ...+..+..++...+++++|   |++++..+  |+. ..++... .+. ...+..+.+.++
T Consensus         4 eA~q~~~qA~~l---~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~-~Lw-~~~y~~~ie~~r   73 (497)
T d1ya0a1           4 QSAQYLRQAEVL---KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQ-DLW-NHAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHHH---HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHH-HHH-HHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHH-HHH-HHHHHHHHHHHH
Confidence            677888887763   344 45666677788888888766   67766542  321 1111111 111 112345556666


Q ss_pred             HHhccCC-CCcccHHHHHHH--HHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCC
Q 038490          143 IMEKYVS-PDACSYNILIHG--CVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNV  219 (344)
Q Consensus       143 ~~~~~~~-~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  219 (344)
                      ...+... ++..-....+..  ....+.++.++..+....+.. .++...+..+...+.+.|+.+.|...+...++..  
T Consensus        74 ~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--  150 (497)
T d1ya0a1          74 GQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--  150 (497)
T ss_dssp             HHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH--
T ss_pred             HhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--
Confidence            5554332 332222222222  223344555555554443331 2244555666667777888888877776655421  


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHH
Q 038490          220 KPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNAL  299 (344)
Q Consensus       220 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  299 (344)
                        ...++..+...+...|++++|...|++..+..+. +...|+.|...+...|+..+|...|.+..... +|-..++..|
T Consensus       151 --~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL  226 (497)
T d1ya0a1         151 --CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNL  226 (497)
T ss_dssp             --HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHH
Confidence              1245666777778888888888888888877654 67788888888888888888888888887764 3466667777


Q ss_pred             HHHHhc
Q 038490          300 ISGFCK  305 (344)
Q Consensus       300 ~~~~~~  305 (344)
                      ...+.+
T Consensus       227 ~~~~~~  232 (497)
T d1ya0a1         227 QKALSK  232 (497)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666544

>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=98.38  E-value=1.3e-05  Score=56.65  Aligned_cols=113  Identities=8%  Similarity=-0.095  Sum_probs=64.2

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      ...+......+.+.|++++|+..|.+........+....              +. ......       ....+|..+..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~--------------~~-~~~~~~-------~~~~~~~Nla~   72 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSE--------------KE-SKASES-------FLLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCH--------------HH-HHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccch--------------hh-hhhcch-------hHHHHHHhHHH
Confidence            345566677788888888888888776542111111000              00 000000       01223455566


Q ss_pred             HHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          127 PKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       127 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      +|.+.|++++|+..++......+.+..+|..+..++...|++++|...|+++.+.
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666666666666666666666666667777777766666654

>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=98.38  E-value=5.6e-06  Score=57.52  Aligned_cols=110  Identities=7%  Similarity=-0.099  Sum_probs=66.1

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCC---CchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038490           48 LHYDLIITKLGRAKMFDEMQQILHQLKHDTRIV---PKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTL  124 (344)
Q Consensus        48 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  124 (344)
                      ..+..-...+.+.|++++|+..|.+........   ++.....                    ...    .....+|..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~--------------------~~~----~~~~~~~~Nl   73 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLD--------------------KKK----NIEISCNLNL   73 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHH--------------------HHH----HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHH--------------------hhh----hHHHHHHhhH
Confidence            345556677888899999999998877532111   1111000                    000    0012345556


Q ss_pred             HHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhC
Q 038490          125 LNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKR  181 (344)
Q Consensus       125 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (344)
                      ..+|.+.|++++|+..++......|.+..+|..+..++...|++++|...|++..+.
T Consensus        74 a~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          74 ATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666666677777777776666666666666666677777777777777777666654

>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=98.33  E-value=2.1e-07  Score=78.58  Aligned_cols=214  Identities=8%  Similarity=-0.118  Sum_probs=113.3

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCch-hHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHH--
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKE-IIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNT--  123 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--  123 (344)
                      ..++..+..++...|++++|   |+++...   .|+. ..++... .+. ...+..+.+.++...+....++..-...  
T Consensus        20 a~a~~~la~~~~~~~~l~ea---ye~~i~~---dp~~a~~~~~e~-~Lw-~~~y~~~ie~~r~~~k~~~~~~~~~~~~~~   91 (497)
T d1ya0a1          20 TDSKLGPAEVWTSRQALQDL---YQKMLVT---DLEYALDKKVEQ-DLW-NHAFKNQITTLQGQAKNRANPNRSEVQANL   91 (497)
T ss_dssp             TCSSSCSSSSHHHHHHHHHH---HHHHHHH---CHHHHHHHTHHH-HHH-HHHTHHHHHHHHHHHSCSSCTTTTHHHHHH
T ss_pred             HHHHhhHHHHHHHHchHHHH---HHHHHHc---ChhhHHHHhHHH-HHH-HHHHHHHHHHHHHhcccccCccHHHHHHHH
Confidence            33445556666667777665   6666543   2322 1111111 111 1123455666666655432233221111  


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchH
Q 038490          124 LLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRV  203 (344)
Q Consensus       124 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  203 (344)
                      +.......+.++.+...+....+..+++...+..+...+.+.|+.+.|...+.......   ....+..+...+...|++
T Consensus        92 ~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~  168 (497)
T d1ya0a1          92 SLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQT  168 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccH
Confidence            11222334556666666655555555667778888888889999999888877765431   134566778888899999


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc
Q 038490          204 DEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRK  274 (344)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  274 (344)
                      ++|...|.++.+..  +.+...|+.+...+...|+..+|...|.+...... |...++..|...+.+....
T Consensus       169 ~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~~~~~~  236 (497)
T d1ya0a1         169 SQAESYYRHAAQLV--PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALSKALES  236 (497)
T ss_dssp             HHHHHHHHHHHHHC--TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHHhhhh
Confidence            99999999988763  45578899999999999999999999999988764 5788888888888765543

>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=98.33  E-value=5.5e-06  Score=55.58  Aligned_cols=91  Identities=10%  Similarity=0.181  Sum_probs=45.6

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcc-------cHHHHHHH
Q 038490           89 VIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDAC-------SYNILIHG  161 (344)
Q Consensus        89 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~l~~~  161 (344)
                      +...+.+.|++++|+..|.+.++.+ +.+..++..+..+|.+.|+++.|...++++.+..+.+..       +|..+...
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            4444555555555555555555544 344555555555555555555555555554443332222       23333344


Q ss_pred             HHhhCChhHHHHHHHHHhh
Q 038490          162 CVVSRRLEDAWKVFDEMVK  180 (344)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~  180 (344)
                      +...+++++|+..|++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            4455555556655555443

>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=98.29  E-value=1.3e-05  Score=55.53  Aligned_cols=62  Identities=11%  Similarity=-0.034  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHc
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKER  287 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  287 (344)
                      +|..+..+|.+.|++++|++.++..++.++. +..+|..+..++...|++++|...|++..+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4555666666666666666666666665433 5666666666666666666666666666665

>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=98.28  E-value=2.9e-05  Score=54.73  Aligned_cols=93  Identities=11%  Similarity=-0.006  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038490          225 VFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFC  304 (344)
Q Consensus       225 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  304 (344)
                      +|..+..+|.+.|++++|+..++...+..+. +...|..+..++...|++++|...|.++....+. +......+-....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  143 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            4666777888899999999999998887654 7888888889999999999999999998876432 4444444433333


Q ss_pred             ccCCH-HHHHHHHHHH
Q 038490          305 KEEDF-EAAFTILDEM  319 (344)
Q Consensus       305 ~~~~~-~~a~~~~~~~  319 (344)
                      ..+.. +...+++..|
T Consensus       144 ~~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         144 KAKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHH
Confidence            33322 2333444444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.28  E-value=9.8e-06  Score=54.31  Aligned_cols=96  Identities=5%  Similarity=0.011  Sum_probs=63.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCC-cC-----HhhHHHHH
Q 038490          121 FNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQ-PT-----LVTFGTLI  194 (344)
Q Consensus       121 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l~  194 (344)
                      +..+...+.+.|++++|...|.+..+..+.+..++..+..+|.+.|++++|+..++++.+.... +.     ..+|..+.
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            3455666777788888888887777777777777777777888888888888877776653111 00     12344455


Q ss_pred             HHHHhhchHHHHHHHHHHHHHh
Q 038490          195 YGLCLELRVDEALKLKEDIMRV  216 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~  216 (344)
                      ..+...+++++|+..|...+..
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc
Confidence            5556666777777777665543

>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=98.26  E-value=1.2e-05  Score=56.77  Aligned_cols=80  Identities=6%  Similarity=-0.083  Sum_probs=53.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHH
Q 038490          117 TVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYG  196 (344)
Q Consensus       117 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (344)
                      ....+..+..++.+.|++++|+..++++.+..+.+..+|..+..++...|++++|+..|++..+... .+......+..+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~  154 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            3445666677777777777777777777777666777777777777777777777777777776532 234444444433


Q ss_pred             H
Q 038490          197 L  197 (344)
Q Consensus       197 ~  197 (344)
                      .
T Consensus       155 ~  155 (169)
T d1ihga1         155 K  155 (169)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.25  E-value=0.00052  Score=53.65  Aligned_cols=237  Identities=13%  Similarity=0.070  Sum_probs=148.4

Q ss_pred             hhhhhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCchh
Q 038490            5 SIRLACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPKEI   84 (344)
Q Consensus         5 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   84 (344)
                      +.+++..+.+.+++..|.+.+++..                +..+|..+...+.+......|.-     ... ....++.
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~----------------~~~~~k~~~~~l~~~~e~~la~i-----~~~-~~~~~~d  100 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN----------------STRTWKEVCFACVDGKEFRLAQM-----CGL-HIVVHAD  100 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT----------------CHHHHHHHHHHHHHTTCHHHHHH-----TTT-TTTTCHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC----------------CHHHHHHHHHHHHhCcHHHHHHH-----HHH-HhhcCHH
Confidence            4456666777777787777776551                57788888888888766654422     111 1334556


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC--------CCcccHH
Q 038490           85 IFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS--------PDACSYN  156 (344)
Q Consensus        85 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~~~  156 (344)
                      ....++..|-..|.+++...+++...... ..+...++.++.+|++.+. ++..+.+........        .....|.
T Consensus       101 ~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s~~y~~~k~~~~c~~~~l~~  178 (336)
T d1b89a_         101 ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-QKMREHLELFWSRVNIPKVLRAAEQAHLWA  178 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-HHHHHHHHHHSTTSCHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-HHHHHHHHhccccCCHHHHHHHHHHcCChH
Confidence            66789999999999999999999887554 6677889999999988753 444444443321111        1233456


Q ss_pred             HHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHH-----------H
Q 038490          157 ILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQ-----------V  225 (344)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----------~  225 (344)
                      .++-.|.+.|+++.|..++-.   .  .++.......+..+.+..+.+...+.....++.   .|+..           .
T Consensus       179 elv~Ly~~~~~~~~A~~~~i~---~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~p~~i~~lL~~v~~~~d  250 (336)
T d1b89a_         179 ELVFLYDKYEEYDNAIITMMN---H--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KPLLLNDLLMVLSPRLD  250 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH---S--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CGGGHHHHHHHHGGGCC
T ss_pred             HHHHHHHhcCCHHHHHHHHHH---c--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---CHHHHHHHHHHhccCCC
Confidence            666677777777766555422   1  223333344455556666666555555544442   22210           1


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCc
Q 038490          226 FASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNE  276 (344)
Q Consensus       226 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  276 (344)
                      ...++..+.+.+++......++.....+   +..+.+++...|...++++.
T Consensus       251 ~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         251 HTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQA  298 (336)
T ss_dssp             HHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHH
Confidence            2334555566777777777777766654   45688899999999988644

>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=98.20  E-value=2e-05  Score=56.03  Aligned_cols=120  Identities=13%  Similarity=0.119  Sum_probs=76.3

Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRK  274 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  274 (344)
                      ......|++++|...|.+.+....-.+-           ........+...-..+...    ....+..+...+...|++
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l-----------~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVL-----------DDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTT-----------GGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCccccc-----------ccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCCc
Confidence            4567788999999999888764321110           0011111111111122211    234566777788888888


Q ss_pred             CcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHh-----hCCCCCChhh
Q 038490          275 NEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMG-----DKGCKANPIS  330 (344)
Q Consensus       275 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~p~~~~  330 (344)
                      ++|+..++++...... +...|..++.++.+.|+.++|++.|+++.     +.|+.|+..+
T Consensus        84 ~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          84 SAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             hHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            8888888888776543 77778888888888888888888888774     3578887655

>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=98.17  E-value=3.6e-05  Score=54.28  Aligned_cols=83  Identities=12%  Similarity=-0.061  Sum_probs=55.5

Q ss_pred             CcccHHHHHHHHHhhCChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038490          151 DACSYNILIHGCVVSRRLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLI  230 (344)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  230 (344)
                      ....|..+..++.+.|++++|+..+++..+.. +.+...|..+..++...|++++|+..|+.+++..  +.+......+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~--p~n~~~~~~l~  152 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAIQAELL  152 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            34456667777777888888888888777663 3356667777777777888888888887777653  33555555555


Q ss_pred             HHHHhc
Q 038490          231 KGLCAV  236 (344)
Q Consensus       231 ~~~~~~  236 (344)
                      .+..+.
T Consensus       153 ~~~~~l  158 (169)
T d1ihga1         153 KVKQKI  158 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544443

>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=98.14  E-value=2.8e-05  Score=55.34  Aligned_cols=122  Identities=11%  Similarity=0.118  Sum_probs=74.8

Q ss_pred             HHHHHHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 038490           53 IITKLGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCG  132 (344)
Q Consensus        53 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  132 (344)
                      ........|++++|.+.|.......   +....        ......+.+...-..+.    +.....+..+...+...|
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l--------~~~~~~~w~~~~r~~l~----~~~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW---RGPVL--------DDLRDFQFVEPFATALV----EDKVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC---CSSTT--------GGGTTSTTHHHHHHHHH----HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC---ccccc--------ccCcchHHHHHHHHHHH----HHHHHHHHHHHHHHHHCC
Confidence            3356677788888888888776542   11110        00000000111111111    112345667777788888


Q ss_pred             ChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHHHHHHhh-----CCCCcCHhh
Q 038490          133 KLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKVFDEMVK-----RRLQPTLVT  189 (344)
Q Consensus       133 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  189 (344)
                      ++++|...++.+....+.+...|..++.+|.+.|+..+|++.|+++..     .|+.|+..+
T Consensus        82 ~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          82 RASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            888888888888877777788888888888888888888888877643     467776654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.14  E-value=3.7e-06  Score=64.02  Aligned_cols=54  Identities=15%  Similarity=0.163  Sum_probs=26.6

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      +.|++++|+..+++.++.. |.+...+..+...++..|++++|...++...+..+
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P   61 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFP   61 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCG
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            3445555555555555443 44444555555555555555555555555444433

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.08  E-value=2.9e-05  Score=53.13  Aligned_cols=116  Identities=11%  Similarity=-0.000  Sum_probs=66.1

Q ss_pred             HhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc----------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038490          198 CLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAV----------GELSLALGVKEEMVRDKIEMDAGIYSSLISA  267 (344)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  267 (344)
                      -+.+.+++|...|+..++..  |.+...+..+..++...          +.+++|+..|++.++.++. +..+|..+..+
T Consensus         8 ~r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~   84 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHH
Confidence            34455566666666555542  33445555554444422          3345677777777766544 66667666666


Q ss_pred             HHHcCC-----------cCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCC
Q 038490          268 LFKAGR-----------KNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGC  324 (344)
Q Consensus       268 ~~~~g~-----------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  324 (344)
                      |...|+           +++|.+.|++..+.  .|+...|..-+..+      .+|.+++.+..+.|+
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            665443           46677777777765  45555555444433      346666666666553

>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=97.98  E-value=2.7e-06  Score=64.86  Aligned_cols=124  Identities=12%  Similarity=-0.011  Sum_probs=67.2

Q ss_pred             hcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHhcCCchHHHHHHHHhhhcCCCCCc-hhHHHHHH
Q 038490           12 PRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGRAKMFDEMQQILHQLKHDTRIVPK-EIIFCNVI   90 (344)
Q Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~   90 (344)
                      ..+.|++++|+..|++..+.           .|.|...+..++..++..|++++|.+.++...+.   .|+ ...+..+.
T Consensus         6 aL~~G~l~eAl~~l~~al~~-----------~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~   71 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA-----------SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLR   71 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT-----------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH-----------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHH
Confidence            44567777777777775333           2337777777777777777777777777777664   343 33333333


Q ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCC
Q 038490           91 GFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVS  149 (344)
Q Consensus        91 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  149 (344)
                      ..+...+..+++..........+-+++...+......+...|+.++|...++++.+..+
T Consensus        72 ~ll~a~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          72 HLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             HHHHHHHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            33333333333222211111111112223333444556666777777777777665544

>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=97.97  E-value=4.7e-05  Score=52.06  Aligned_cols=72  Identities=11%  Similarity=0.095  Sum_probs=42.2

Q ss_pred             HHhcCCchHHHHHHHHhhhcCCCCCchhHHHHHHHHHHhc----------ccHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038490           57 LGRAKMFDEMQQILHQLKHDTRIVPKEIIFCNVIGFYGRA----------RLLERALQMFDEMSSFNVQMTVKFFNTLLN  126 (344)
Q Consensus        57 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  126 (344)
                      |-+.+.+++|++.|+...+..  |.+..++..+..++...          +.+++|+..|++.++.+ |.+..+|..+..
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            344556777777777777642  44556666666666533          33456666666666554 445556665555


Q ss_pred             HHHhc
Q 038490          127 PKLTC  131 (344)
Q Consensus       127 ~~~~~  131 (344)
                      +|...
T Consensus        84 ~y~~~   88 (145)
T d1zu2a1          84 AYTSF   88 (145)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            55443

>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=97.70  E-value=0.00069  Score=46.68  Aligned_cols=92  Identities=21%  Similarity=0.151  Sum_probs=53.1

Q ss_pred             HHHHhhchHHHHHHHHHHHHHhcCCCCC----------HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CCCCC--
Q 038490          195 YGLCLELRVDEALKLKEDIMRVYNVKPD----------GQVFASLIKGLCAVGELSLALGVKEEMVRD-----KIEMD--  257 (344)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~--  257 (344)
                      ..+...|++++|+..|++.++...-.|+          ..+|+.+..+|.+.|++++|...+++..+.     ...++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3445567777777777776654322222          245666777777777777777777666542     11111  


Q ss_pred             ---HHHHHHHHHHHHHcCCcCcHHHHHHHHHH
Q 038490          258 ---AGIYSSLISALFKAGRKNEFPAILKEMKE  286 (344)
Q Consensus       258 ---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  286 (344)
                         ...++.+..+|...|++++|+..|++..+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               12345556666666666666666666543

>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=97.60  E-value=0.00047  Score=47.56  Aligned_cols=63  Identities=14%  Similarity=0.104  Sum_probs=35.6

Q ss_pred             hhHHHH--HHHHHhcCCchHHHHHHHHhhhcCCCCCc----------hhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 038490           48 LHYDLI--ITKLGRAKMFDEMQQILHQLKHDTRIVPK----------EIIFCNVIGFYGRARLLERALQMFDEMS  110 (344)
Q Consensus        48 ~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  110 (344)
                      .+|..+  ...+.+.|++++|+..|++..+...-.|+          ...|+.+..+|...|++++|...+++.+
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            345544  44555667777777777776543211121          2345556666666666666666666554

>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=97.55  E-value=0.00062  Score=42.35  Aligned_cols=62  Identities=18%  Similarity=0.084  Sum_probs=33.1

Q ss_pred             HHHHHHHhhchHHHHHHHHHHHHHhcCC----CCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 038490          192 TLIYGLCLELRVDEALKLKEDIMRVYNV----KPD-GQVFASLIKGLCAVGELSLALGVKEEMVRDK  253 (344)
Q Consensus       192 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  253 (344)
                      .+...+.+.|++++|+..|++.++....    .++ ..++..+..++.+.|++++|+..++++++..
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            4445555566666666666555443211    111 3455556666666666666666666666554

>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=97.50  E-value=0.00048  Score=42.91  Aligned_cols=77  Identities=8%  Similarity=-0.091  Sum_probs=51.8

Q ss_pred             hhhHHHHHHHHHhcCCchHHHHHHHHhhhcCC----CCC-chhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHH
Q 038490           47 LLHYDLIITKLGRAKMFDEMQQILHQLKHDTR----IVP-KEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFF  121 (344)
Q Consensus        47 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  121 (344)
                      ...+..+...+.+.|++++|+..|++..+...    ..+ ...++..+..++.+.|++++|+..++++++.. |-+..++
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a~   83 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRAN   83 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHHH
Confidence            44455677888888888888888887654310    111 24567778888888888888888888888765 4445555


Q ss_pred             HHH
Q 038490          122 NTL  124 (344)
Q Consensus       122 ~~l  124 (344)
                      +.+
T Consensus        84 ~Nl   86 (95)
T d1tjca_          84 GNL   86 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>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=96.45  E-value=0.054  Score=35.48  Aligned_cols=82  Identities=5%  Similarity=-0.160  Sum_probs=44.1

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCC
Q 038490          237 GELSLALGVKEEMVRDKIEMDAGIYSSLISALFK----AGRKNEFPAILKEMKERGCKPNSVTYNALISGFCK----EED  308 (344)
Q Consensus       237 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~  308 (344)
                      .+.++|...+++..+.|   ++.....|...|..    ..+.++|.+.|++..+.|   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34556666666655554   33444444444443    234556666666666654   33334444444443    346


Q ss_pred             HHHHHHHHHHHhhCCC
Q 038490          309 FEAAFTILDEMGDKGC  324 (344)
Q Consensus       309 ~~~a~~~~~~~~~~~~  324 (344)
                      .++|.++|++..+.|.
T Consensus       111 ~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         111 EKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHCCC
Confidence            6777777777766653

>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=96.21  E-value=0.076  Score=34.72  Aligned_cols=110  Identities=9%  Similarity=-0.018  Sum_probs=54.5

Q ss_pred             ChhHHHHHHHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHH
Q 038490          167 RLEDAWKVFDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCA----VGELSLA  242 (344)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  242 (344)
                      |+++|.++|++..+.|..   .....+.  .....+.++|+..+++..+.    -++..+..|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~----g~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcc----cchhhhhhHHHhhhhccccchhhHHH
Confidence            445555555555555421   1111121  12234555666666654442    233344444444432    3356667


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCcCcHHHHHHHHHHcC
Q 038490          243 LGVKEEMVRDKIEMDAGIYSSLISALFK----AGRKNEFPAILKEMKERG  288 (344)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  288 (344)
                      .++|++..+.|   ++.....|...|..    ..+.++|...|++..+.|
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            77777766654   34444445555544    235556666666666654

>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=96.14  E-value=0.073  Score=33.94  Aligned_cols=63  Identities=19%  Similarity=0.234  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhhCCC
Q 038490          261 YSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGDKGC  324 (344)
Q Consensus       261 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  324 (344)
                      +...++.....|.-++-.+++..+.+. -+|++...-.+..+|.+.|...++-.++.+..+.|+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            333444444555555555555544332 234444444455555555555555555555555544

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.54  E-value=0.14  Score=32.60  Aligned_cols=139  Identities=11%  Similarity=0.079  Sum_probs=83.2

Q ss_pred             hcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhhCChhHHHHH
Q 038490           95 RARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVSRRLEDAWKV  174 (344)
Q Consensus        95 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (344)
                      -.|.+++..++..+....   .+..-||-++--....-+-+...++++.+-....  .          ...++.......
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FD--l----------s~C~Nlk~vv~C   78 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD--L----------DKCQNLKSVVEC   78 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC--G----------GGCSCTHHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcC--c----------hhhhcHHHHHHH
Confidence            456667777777776653   3444555555555555555666666655543322  1          122333333333


Q ss_pred             HHHHhhCCCCcCHhhHHHHHHHHHhhchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 038490          175 FDEMVKRRLQPTLVTFGTLIYGLCLELRVDEALKLKEDIMRVYNVKPDGQVFASLIKGLCAVGELSLALGVKEEMVRDKI  254 (344)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  254 (344)
                      +-.+-     -+...+...++.....|+-++-.++++.+++.  -.+++...-.+..+|.+.|+..++.+++.+.-+.|.
T Consensus        79 ~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn--~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          79 GVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN--NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            32221     13444556667777778878777787776653  366667777777888888888888888888877776


Q ss_pred             C
Q 038490          255 E  255 (344)
Q Consensus       255 ~  255 (344)
                      +
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=94.91  E-value=0.24  Score=31.60  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=12.0

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhh
Q 038490          298 ALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       298 ~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      .|.-+|.+.|++++|.+.++.+.+
T Consensus        78 ~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          78 YLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHc
Confidence            334445555555555555555544

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.81  E-value=0.2  Score=30.17  Aligned_cols=47  Identities=4%  Similarity=0.145  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhcc
Q 038490          101 RALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKY  147 (344)
Q Consensus       101 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  147 (344)
                      ++.+-++.+...++.|++.+..+.+++|-+.+++..|.++|+.++..
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444444444444444444444445444445555555544444433

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.50  E-value=0.51  Score=30.00  Aligned_cols=49  Identities=18%  Similarity=0.227  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 038490          202 RVDEALKLKEDIMRVYNVKPD-GQVFASLIKGLCAVGELSLALGVKEEMVRD  252 (344)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  252 (344)
                      +.++++.+++++.+..  +.+ ...+-.+.-+|.+.|++++|.+.++.+++.
T Consensus        53 d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          53 DERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             HHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            3445555555544321  112 123333334444555555555555555544

>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=93.48  E-value=0.2  Score=30.16  Aligned_cols=62  Identities=15%  Similarity=0.118  Sum_probs=40.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHHHHHHHHcCCCCChhhHHHHH
Q 038490          238 ELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAILKEMKERGCKPNSVTYNALI  300 (344)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  300 (344)
                      +.-+..+-++.+...+..|++.+..+.+++|.+.+++.-|.++|+..+.+. .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            344566666666666677777777777777777777777777777776552 22344555444

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=93.17  E-value=1.6  Score=34.90  Aligned_cols=289  Identities=8%  Similarity=-0.029  Sum_probs=152.8

Q ss_pred             hhhhhcccCCchHHhhhhcCCCCCCCCCCCCCCCCCCcchhhHHHHHHHHHh--cCCchHHHHHHHHhhhcCCCCCchhH
Q 038490            8 LACLPRLQKDPKLALQLFKNPNPNPNDTEAHPLKPFRYNLLHYDLIITKLGR--AKMFDEMQQILHQLKHDTRIVPKEII   85 (344)
Q Consensus         8 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (344)
                      .+.-..++|+..++.++...+..-+              ..-|-..-..-..  .....++..++++-.   +.+.....
T Consensus        12 ~a~~a~~~~~~~~~~~~~~~L~dyp--------------L~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p---~~P~~~~l   74 (450)
T d1qsaa1          12 QIKQAWDNRQMDVVEQMMPGLKDYP--------------LYPYLEYRQITDDLMNQPAVTVTNFVRANP---TLPPARTL   74 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHSGGGTTST--------------THHHHHHHHHHHTGGGCCHHHHHHHHHHCT---TCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHhhhcCCC--------------CHHHHHHHHHHhccccCCHHHHHHHHHHCC---CChhHHHH
Confidence            4555677889999999888883211              1223222222222  234444444443322   11222233


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHHHHHHHhh
Q 038490           86 FCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNILIHGCVVS  165 (344)
Q Consensus        86 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (344)
                      -...+..+.+.+++....+.+.    . .+.+...-..+..+....|+.+.|...+..+=..+...+..+..+...+.+.
T Consensus        75 r~~~l~~L~~~~~w~~~~~~~~----~-~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~  149 (450)
T d1qsaa1          75 QSRFVNELARREDWRGLLAFSP----E-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRAS  149 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCC----S-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccCHHHHHHhcc----C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Confidence            3445667777888776554442    1 2456666667777788888888888777766555554555555555554444


Q ss_pred             CC------------------hhHHHHHHHHHhh--------------C---------CCCcCHhhHHHHHHHHHh--hch
Q 038490          166 RR------------------LEDAWKVFDEMVK--------------R---------RLQPTLVTFGTLIYGLCL--ELR  202 (344)
Q Consensus       166 ~~------------------~~~a~~~~~~~~~--------------~---------~~~~~~~~~~~l~~~~~~--~~~  202 (344)
                      |.                  +..|..+...+..              .         ...++......+..++.+  ..+
T Consensus       150 ~~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~l~rla~~d  229 (450)
T d1qsaa1         150 GKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFTRQMAAVAFASVARQD  229 (450)
T ss_dssp             TCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHHHHHhcCCCChhhhHHHHHHHHHHhccC
Confidence            33                  3222222221100              0         001111111122222222  245


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHH--HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcCcHHHH
Q 038490          203 VDEALKLKEDIMRVYNVKPDGQV--FASLIKGLCAVGELSLALGVKEEMVRDKIEMDAGIYSSLISALFKAGRKNEFPAI  280 (344)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  280 (344)
                      .+.+...+..........++...  ...+.......+..+.+...+......+.  +.......+......+++..+...
T Consensus       230 ~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~~~~  307 (450)
T d1qsaa1         230 AENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGLNTW  307 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             hhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHHHHH
Confidence            56666666665444332222111  11122222334566777777777666542  444445556666777888888888


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 038490          281 LKEMKERGCKPNSVTYNALISGFCKEEDFEAAFTILDEMGD  321 (344)
Q Consensus       281 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  321 (344)
                      +..|.... .-...-.--+.+++...|+.+.|..+|..+..
T Consensus       308 ~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         308 LARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            88775321 11223333456788899999999999998864

>d1bpoa1 a.118.1.4 (A:331-487) Clathrin heavy-chain linker domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy-chain linker domain
domain: Clathrin heavy-chain linker domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.53  E-value=2.2  Score=28.01  Aligned_cols=96  Identities=10%  Similarity=-0.000  Sum_probs=42.2

Q ss_pred             CCCchhHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHhccCCCCcccHHHH
Q 038490           79 IVPKEIIFCNVIGFYGRARLLERALQMFDEMSSFNVQMTVKFFNTLLNPKLTCGKLDRMKELFQIMEKYVSPDACSYNIL  158 (344)
Q Consensus        79 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  158 (344)
                      ++--...|..-.+.+...|++.+|-++.-... .|+-.+..|.+.+-..-...|...-...+|..+.+.+..+..----+
T Consensus        27 LpGAd~l~~~~F~~lf~~g~y~eAA~~aA~sP-~giLRt~~Ti~rFk~~~~~pGq~spLL~YF~~Ll~~~~LN~~ESlEl  105 (157)
T d1bpoa1          27 LAGAEELFARKFNALFAQGNYSEAAKVAANAP-KGILRTPDTIRRFQSVPAQPGQTSPLLQYFGILLDQGQLNKYESLEL  105 (157)
T ss_dssp             CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSG-GGSSCSHHHHHHHTTSCCCTTSCCHHHHHHHHHHHHSCCCHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHcCCHHHHHHHHHhCC-cccccCHHHHHHHHcCCCCCCCCCHHHHHHHHHHhcCCCchHHhHHH
Confidence            33334444444444455555555554443322 22334444444444333334444444455555444444333333334


Q ss_pred             HHHHHhhCChhHHHHHH
Q 038490          159 IHGCVVSRRLEDAWKVF  175 (344)
Q Consensus       159 ~~~~~~~~~~~~a~~~~  175 (344)
                      ++.-...|+.+-..+++
T Consensus       106 ~r~vL~q~r~~lve~Wl  122 (157)
T d1bpoa1         106 CRPVLQQGRKQLLEKWL  122 (157)
T ss_dssp             HHHHHHTTCHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHH
Confidence            44444455555444443