Citrus Sinensis ID: 009143

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540--
Protein Sequence
MALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRNK
Secondary Structure (PSIPRED)
cccHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
malfiacgessspVHIQILRFLYQTFDSIKLNVARIfsnsrtcsdddnlpctlnDIMSYvgdqcrsktrhwfsnkdsdnegnpqAVFNALDLILKENLDRLKtmrdtgpvrctletDYRRHVAVIRDLCLGGKIGTALWLRRKMiqkgtvpdvlthNYLVNelckigdleKADHVIREmsemrpspncatynaFITGYCRVNELDKALHLFSTManngirpnrvTHNILVHALCKKGLLGDAVKFLGEVladddgkatsDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKrgflpdvitYNTLLNCLCkqgkldeashfygvlsktgvapdqisYKTIIQGLCIHGDIVKAREFLLSMLeksvvpephiwnviidgygrcgdlsnAFSIRDLMLSFgvssnvftFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRNK
Flexible Loop (DISEMBL)
MALFiacgessspVHIQILRFLYQTFDSIKLNVARIfsnsrtcsdddnlPCTLNDIMSYVGDQCRSKTRHWFsnkdsdnegnPQAVFNALDLILKENLDrlktmrdtgpvrctletdyrrhVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSemrpspncatYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEvladddgkaTSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQtlglaidhipfRILKKRYRrmkesdkardihqkwllrnk
Low Complexity Region (SEG)
MALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRNK
Disordered region (IsUnstruct)
**LFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWF************AVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIRE*******PNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR********************
Disordered Region (DISOPRED)
*A******ESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN*
Disordered Region (DISEMBL)
MALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR********RDIHQKWLLRNK
Disordered Region (DISPRO)
*ALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRNK
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	542	2.2.26 [Sep-21-2011]
Q8L6Y3	593	Pentatricopeptide repeat-	yes	no	0.981	0.897	0.494	1e-153
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.691	0.595	0.313	1e-58
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.747	0.546	0.305	4e-58
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.732	0.631	0.294	6e-57
Q3ECK2	548	Pentatricopeptide repeat-	no	no	0.693	0.686	0.322	6e-57
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.714	0.625	0.303	3e-56
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.708	0.609	0.289	2e-55
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.693	0.594	0.291	3e-55
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.750	0.641	0.285	3e-55
Q9CAM8	629	Pentatricopeptide repeat-	no	no	0.688	0.593	0.312	7e-55

>sp|Q8L6Y3|PP396_ARATH Pentatricopeptide repeat-containing protein At5g24830 OS=Arabidopsis thaliana GN=At5g24830 PE=2 SV=1

 Score =  541 bits (1394), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 286/578 (49%), Positives = 380/578 (65%), Gaps = 46/578 (7%)

Query: 1   MALFIACGESSSPVHIQILRFLYQTFDSIKLNVAR----IFSNSRTCSDDDNLPCTLNDI 56
           MAL I+CGE +S     + R L Q+ D +  NV+R    IF+N R    +  L C +   
Sbjct: 1   MALLISCGEVTSS-QFTVFRLLNQSLDFVSDNVSRLLAPIFTNLR--DFEMRLSC-IERP 56

Query: 57  MSYVGDQCRSKTRHWFSN-KDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLE 115
            S  G+     T  WFS+ KD D + +P+A+FN LD ILK +LDRL ++R++  V  T  
Sbjct: 57  PSISGNHSHLCTEKWFSDQKDYDQKEDPEAIFNVLDYILKSSLDRLASLRES--VCQTKS 114

Query: 116 TDY----RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEK 171
            DY      H +++RDLCL GK+  ALWLR+KMI  G +P ++THN+L+N LCK G +EK
Sbjct: 115 FDYDDCLSIHSSIMRDLCLQGKLDAALWLRKKMIYSGVIPGLITHNHLLNGLCKAGYIEK 174

Query: 172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH 231
           AD ++REM EM PSPNC +YN  I G C VN +DKAL+LF+TM   GIRPNRVT NI+VH
Sbjct: 175 ADGLVREMREMGPSPNCVSYNTLIKGLCSVNNVDKALYLFNTMNKYGIRPNRVTCNIIVH 234

Query: 232 ALCKKGLLGDA-VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK 290
           ALC+KG++G+   K L E+L      A  D++  TILMDS FKNG+  QAL +W +M QK
Sbjct: 235 ALCQKGVIGNNNKKLLEEILDSSQANAPLDIVICTILMDSCFKNGNVVQALEVWKEMSQK 294

Query: 291 NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA 350
           N+  D V YNV+I G C +G++ +A+ + C M+KRG  PDV TYNTL++ LCK+GK DEA
Sbjct: 295 NVPADSVVYNVIIRGLCSSGNMVAAYGFMCDMVKRGVNPDVFTYNTLISALCKEGKFDEA 354

Query: 351 SHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDG 410
              +G +   GVAPDQISYK IIQGLCIHGD+ +A EFLLSML+ S++PE  +WNV+IDG
Sbjct: 355 CDLHGTMQNGGVAPDQISYKVIIQGLCIHGDVNRANEFLLSMLKSSLLPEVLLWNVVIDG 414

Query: 411 YGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR---------------------- 448
           YGR GD S+A S+ +LMLS+GV  NV+T NALI    +                      
Sbjct: 415 YGRYGDTSSALSVLNLMLSYGVKPNVYTNNALIHGYVKGGRLIDAWWVKNEMRSTKIHPD 474

Query: 449 --------GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFA 500
                   GA+C LGH+ LA QLYDEMLRRG  PDIITYTEL++G C +G +K+AE + +
Sbjct: 475 TTTYNLLLGAACTLGHLRLAFQLYDEMLRRGCQPDIITYTELVRGLCWKGRLKKAESLLS 534

Query: 501 KIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL 538
           +IQ  G+ IDH+PF IL K+Y R++   +A  +++KWL
Sbjct: 535 RIQATGITIDHVPFLILAKKYTRLQRPGEAYLVYKKWL 572

Arabidopsis thaliana (taxid: 3702)

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

 Score =  228 bits (580), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 120/383 (31%), Positives = 206/383 (53%), Gaps = 8/383 (2%)

Query: 124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
           +I  L L  K   A+ L  +M+ KG  PD++T+  +VN LCK GD + A +++ +M + +
Sbjct: 192 LIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLLNKMEQGK 251

Query: 184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
             P    YN  I G C+   +D AL+LF  M   GIRPN VT++ L+  LC  G   DA 
Sbjct: 252 LEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNYGRWSDAS 311

Query: 244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
           + L +++   + K   DV T + L+D++ K G   +A  L+++M +++I   IV Y+ LI
Sbjct: 312 RLLSDMI---ERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLI 368

Query: 304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
           NGFC++  +  A   F  M+ +   PDV+TYNTL+   CK  +++E    +  +S+ G+ 
Sbjct: 369 NGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLV 428

Query: 364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
            + ++Y  +IQGL   GD   A+E    M+   V P    +N ++DG  + G L  A  +
Sbjct: 429 GNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVV 488

Query: 424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
            + +    +   ++T+N +I        C  G +     L+  +  +G+ PD++ Y  +I
Sbjct: 489 FEYLQRSKMEPTIYTYNIMI-----EGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMI 543

Query: 484 KGHCARGNMKEAEEVFAKIQTLG 506
            G C +G+ +EA+ +F +++  G
Sbjct: 544 SGFCRKGSKEEADALFKEMKEDG 566

Arabidopsis thaliana (taxid: 3702)

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

 Score =  226 bits (576), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 137/448 (30%), Positives = 224/448 (50%), Gaps = 43/448 (9%)

Query: 124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
           VI  +C  G+I  A  L   M  KG  PDV++++ +VN  C+ G+L+K   +I  M    
Sbjct: 252 VIHFVCQLGRIKEAHHLLLLMELKGYTPDVISYSTVVNGYCRFGELDKVWKLIEVMKRKG 311

Query: 184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
             PN   Y + I   CR+ +L +A   FS M   GI P+ V +  L+   CK+G +  A 
Sbjct: 312 LKPNSYIYGSIIGLLCRICKLAEAEEAFSEMIRQGILPDTVVYTTLIDGFCKRGDIRAAS 371

Query: 244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD-------- 295
           KF  E+ + D    T DV+T T ++  + + GD  +A  L+++MF K ++ D        
Sbjct: 372 KFFYEMHSRD---ITPDVLTYTAIISGFCQIGDMVEAGKLFHEMFCKGLEPDSVTFTELI 428

Query: 296 ---------------------------IVAYNVLINGFCLNGDISSAFAYFCQMLKRGFL 328
                                      +V Y  LI+G C  GD+ SA     +M K G  
Sbjct: 429 NGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDLDSANELLHEMWKIGLQ 488

Query: 329 PDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREF 388
           P++ TYN+++N LCK G ++EA    G     G+  D ++Y T++   C  G++ KA+E 
Sbjct: 489 PNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQEI 548

Query: 389 LLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR 448
           L  ML K + P    +NV+++G+   G L +   + + ML+ G++ N  TFN+L+     
Sbjct: 549 LKEMLGKGLQPTIVTFNVLMNGFCLHGMLEDGEKLLNWMLAKGIAPNATTFNSLV----- 603

Query: 449 GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLA 508
              C   ++  A  +Y +M  RG+ PD  TY  L+KGHC   NMKEA  +F +++  G +
Sbjct: 604 KQYCIRNNLKAATAIYKDMCSRGVGPDGKTYENLVKGHCKARNMKEAWFLFQEMKGKGFS 663

Query: 509 IDHIPFRILKKRYRRMKESDKARDIHQK 536
           +    + +L K + + K+  +AR++  +
Sbjct: 664 VSVSTYSVLIKGFLKRKKFLEAREVFDQ 691

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ14|PPR96_ARATH Pentatricopeptide repeat-containing protein At1g62930, chloroplastic OS=Arabidopsis thaliana GN=At1g62930 PE=2 SV=2

 Score =  222 bits (566), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 120/407 (29%), Positives = 221/407 (54%), Gaps = 10/407 (2%)

Query: 124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
           +I  L L  K   A+ L  +M+ +G  PD+ T+  +VN LCK GD++ A  ++++M + +
Sbjct: 191 LIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLALSLLKKMEKGK 250

Query: 184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
              +   Y   I   C    ++ AL+LF+ M N GIRPN VT+N L+  LC  G   DA 
Sbjct: 251 IEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDAS 310

Query: 244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
           + L +++   + K   +V+T + L+D++ K G   +A  L+++M +++I  DI  Y+ LI
Sbjct: 311 RLLSDMI---ERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLI 367

Query: 304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
           NGFC++  +  A   F  M+ +   P+V+TYNTL+   CK  +++E    +  +S+ G+ 
Sbjct: 368 NGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLV 427

Query: 364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
            + ++Y T+IQGL   GD   A++    M+   V P+   +++++DG  + G L  A  +
Sbjct: 428 GNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKALVV 487

Query: 424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
            + +    +  +++T+N +I        C  G +     L+  +  +G+ P++I YT +I
Sbjct: 488 FEYLQKSKMEPDIYTYNIMI-----EGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTTMI 542

Query: 484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
            G C +G  +EA+ +F +++  G   +   +  L +   R+++ DKA
Sbjct: 543 SGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIR--ARLRDGDKA 587

Arabidopsis thaliana (taxid: 3702)

>sp|Q3ECK2|PPR92_ARATH Pentatricopeptide repeat-containing protein At1g62680, mitochondrial OS=Arabidopsis thaliana GN=At1g62680 PE=2 SV=2

 Score =  222 bits (566), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 124/384 (32%), Positives = 205/384 (53%), Gaps = 8/384 (2%)

Query: 124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
           VI   C   ++  AL +  KM++ G  PD +T   LVN  C+   +  A  ++ +M E+ 
Sbjct: 126 VINCFCCCFQVSLALSILGKMLKLGYEPDRVTIGSLVNGFCRRNRVSDAVSLVDKMVEIG 185

Query: 184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
             P+   YNA I   C+   ++ A   F  +   GIRPN VT+  LV+ LC      DA 
Sbjct: 186 YKPDIVAYNAIIDSLCKTKRVNDAFDFFKEIERKGIRPNVVTYTALVNGLCNSSRWSDAA 245

Query: 244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
           + L +++     K T +VIT + L+D++ KNG   +A  L+ +M + +I  DIV Y+ LI
Sbjct: 246 RLLSDMIKK---KITPNVITYSALLDAFVKNGKVLEAKELFEEMVRMSIDPDIVTYSSLI 302

Query: 304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
           NG CL+  I  A   F  M+ +G L DV++YNTL+N  CK  ++++    +  +S+ G+ 
Sbjct: 303 NGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLINGFCKAKRVEDGMKLFREMSQRGLV 362

Query: 364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
            + ++Y T+IQG    GD+ KA+EF   M    + P+   +N+++ G    G+L  A  I
Sbjct: 363 SNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISPDIWTYNILLGGLCDNGELEKALVI 422

Query: 424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
            + M    +  ++ T+  +I    RG  C  G +  A  L+  +  +G+ PDI+TYT ++
Sbjct: 423 FEDMQKREMDLDIVTYTTVI----RGM-CKTGKVEEAWSLFCSLSLKGLKPDIVTYTTMM 477

Query: 484 KGHCARGNMKEAEEVFAKIQTLGL 507
            G C +G + E E ++ K++  GL
Sbjct: 478 SGLCTKGLLHEVEALYTKMKQEGL 501

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  220 bits (560), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 120/395 (30%), Positives = 204/395 (51%), Gaps = 8/395 (2%)

Query: 123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM 182
            +I  LCL G++  AL L  +M++ G  PD +T+  ++N LCK G+   A  + R+M E 
Sbjct: 180 TLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEER 239

Query: 183 RPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDA 242
               +   Y+  I   C+    D AL LF+ M   GI+ + VT++ L+  LC  G   D 
Sbjct: 240 NIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDG 299

Query: 243 VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVL 302
            K L E++  +      DV+T + L+D + K G   +A  L+N+M  + I  D + YN L
Sbjct: 300 AKMLREMIGRN---IIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSL 356

Query: 303 INGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV 362
           I+GFC    +  A   F  M+ +G  PD++TY+ L+N  CK  ++D+    +  +S  G+
Sbjct: 357 IDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGL 416

Query: 363 APDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFS 422
            P+ I+Y T++ G C  G +  A+E    M+ + V P    + +++DG    G+L+ A  
Sbjct: 417 IPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALE 476

Query: 423 IRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTEL 482
           I + M    ++  +  +N +I        CN   +  A  L+  +  +G+ PD++TY  +
Sbjct: 477 IFEKMQKSRMTLGIGIYNIII-----HGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVM 531

Query: 483 IKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRIL 517
           I G C +G++ EA+ +F K++  G   D   + IL
Sbjct: 532 IGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNIL 566

Arabidopsis thaliana (taxid: 3702)

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

 Score =  217 bits (553), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 114/394 (28%), Positives = 215/394 (54%), Gaps = 10/394 (2%)

Query: 137 ALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT 196
           A+ L  +M+ KG  PD++T+  +VN LCK GD++ A  ++++M + +  P    YN  I 
Sbjct: 205 AVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDIDLALSLLKKMEQGKIEPGVVIYNTIID 264

Query: 197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK 256
             C    ++ AL+LF+ M N GIRPN VT+N L+  LC  G   DA + L +++   + K
Sbjct: 265 ALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMI---ERK 321

Query: 257 ATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAF 316
              +V+T + L+D++ K G   +A  L+++M +++I  DI  Y+ LINGFC++  +  A 
Sbjct: 322 INPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAK 381

Query: 317 AYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGL 376
             F  M+ +   P+V+TYNTL+   CK  ++DE    +  +S+ G+  + ++Y T+I G 
Sbjct: 382 HMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGF 441

Query: 377 CIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV 436
               +   A+     M+   V+P+   +++++DG    G +  A  + + +    +  ++
Sbjct: 442 FQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDI 501

Query: 437 FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAE 496
           +T+N +I        C  G +     L+  +  +G+ P+++TYT ++ G C +G  +EA+
Sbjct: 502 YTYNIMI-----EGMCKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEAD 556

Query: 497 EVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
            +F +++  G   D   +  L + +  +++ DKA
Sbjct: 557 ALFREMKEEGPLPDSGTYNTLIRAH--LRDGDKA 588

Arabidopsis thaliana (taxid: 3702)

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

 Score =  216 bits (551), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 112/384 (29%), Positives = 211/384 (54%), Gaps = 8/384 (2%)

Query: 123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM 182
            +I  L L  K   A+ L  +M+Q+G  PD++T+  +VN LCK GD++ A  ++++M + 
Sbjct: 193 TLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDLALSLLKKMEKG 252

Query: 183 RPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDA 242
           +   +   YN  I G C+   +D AL+LF+ M N GIRP+  T++ L+  LC  G   DA
Sbjct: 253 KIEADVVIYNTIIDGLCKYKHMDDALNLFTEMDNKGIRPDVFTYSSLISCLCNYGRWSDA 312

Query: 243 VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVL 302
            + L +++   + K   +V+T + L+D++ K G   +A  L+++M +++I  DI  Y+ L
Sbjct: 313 SRLLSDMI---ERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSL 369

Query: 303 INGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV 362
           INGFC++  +  A   F  M+ +   P+V+TY+TL+   CK  +++E    +  +S+ G+
Sbjct: 370 INGFCMHDRLDEAKHMFELMISKDCFPNVVTYSTLIKGFCKAKRVEEGMELFREMSQRGL 429

Query: 363 APDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFS 422
             + ++Y T+I G     D   A+     M+   V P    +N+++DG  + G L+ A  
Sbjct: 430 VGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMV 489

Query: 423 IRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTEL 482
           + + +    +  +++T+N +I        C  G +    +L+  +  +G++P++I Y  +
Sbjct: 490 VFEYLQRSTMEPDIYTYNIMI-----EGMCKAGKVEDGWELFCNLSLKGVSPNVIAYNTM 544

Query: 483 IKGHCARGNMKEAEEVFAKIQTLG 506
           I G C +G+ +EA+ +  K++  G
Sbjct: 545 ISGFCRKGSKEEADSLLKKMKEDG 568

Arabidopsis thaliana (taxid: 3702)

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

 Score =  216 bits (551), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 120/421 (28%), Positives = 220/421 (52%), Gaps = 14/421 (3%)

Query: 114 LETDYR----RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDL 169
           +E  YR        +I  L L  K   A+ L  +M+Q+G  P+++T+  +VN LCK GD 
Sbjct: 182 VEMGYRPDTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDT 241

Query: 170 EKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNIL 229
           + A +++ +M   +   +   +N  I   C+   +D AL+LF  M   GIRPN VT++ L
Sbjct: 242 DLALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSL 301

Query: 230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ 289
           +  LC  G   DA + L +++   + K   +++T   L+D++ K G   +A  L++DM +
Sbjct: 302 ISCLCSYGRWSDASQLLSDMI---EKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIK 358

Query: 290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE 349
           ++I  DI  YN L+NGFC++  +  A   F  M+ +   PDV+TYNTL+   CK  ++++
Sbjct: 359 RSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVED 418

Query: 350 ASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIID 409
            +  +  +S  G+  D ++Y T+IQGL   GD   A++    M+   V P+   +++++D
Sbjct: 419 GTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLD 478

Query: 410 GYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR 469
           G    G L  A  + D M    +  +++ +  +I        C  G +     L+  +  
Sbjct: 479 GLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMI-----EGMCKAGKVDDGWDLFCSLSL 533

Query: 470 RGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDK 529
           +G+ P+++TY  +I G C++  ++EA  +  K++  G   +   +  L + +  +++ DK
Sbjct: 534 KGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAH--LRDGDK 591

Query: 530 A 530
           A
Sbjct: 592 A 592

Arabidopsis thaliana (taxid: 3702)

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

 Score =  215 bits (547), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 120/384 (31%), Positives = 205/384 (53%), Gaps = 11/384 (2%)

Query: 123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM 182
            +I  L L  K   A+ L  +M+Q+G  PD++T+  +VN LCK GD++ A +++ +M   
Sbjct: 193 TLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDLALNLLNKMEAA 252

Query: 183 RPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDA 242
           R   N   +N  I   C+   ++ A+ LF+ M   GIRPN VT+N L++ LC  G   DA
Sbjct: 253 RIKANVVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIRPNVVTYNSLINCLCNYGRWSDA 312

Query: 243 VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVL 302
            + L  +L   + K   +V+T   L+D++FK G   +A  L  +M Q++I  D + YN+L
Sbjct: 313 SRLLSNML---EKKINPNVVTFNALIDAFFKEGKLVEAEKLHEEMIQRSIDPDTITYNLL 369

Query: 303 INGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV 362
           INGFC++  +  A   F  M+ +  LP++ TYNTL+N  CK  ++++    +  +S+ G+
Sbjct: 370 INGFCMHNRLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCKCKRVEDGVELFREMSQRGL 429

Query: 363 APDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFS 422
             + ++Y TIIQG    GD   A+     M+   V  +   +++++ G    G L  A  
Sbjct: 430 VGNTVTYTTIIQGFFQAGDCDSAQMVFKQMVSNRVPTDIMTYSILLHGLCSYGKLDTALV 489

Query: 423 IRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTEL 482
           I   +    +  N+F +N +I        C  G +  A  L+  +    I PD++TY  +
Sbjct: 490 IFKYLQKSEMELNIFIYNTMI-----EGMCKAGKVGEAWDLFCSL---SIKPDVVTYNTM 541

Query: 483 IKGHCARGNMKEAEEVFAKIQTLG 506
           I G C++  ++EA+++F K++  G
Sbjct: 542 ISGLCSKRLLQEADDLFRKMKEDG 565

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	542
359495888	580	PREDICTED: pentatricopeptide repeat-cont	0.974	0.910	0.557	1e-177
255574125	621	pentatricopeptide repeat-containing prot	0.946	0.826	0.539	1e-167
449442212	633	PREDICTED: pentatricopeptide repeat-cont	0.981	0.840	0.499	1e-155
297808491	588	predicted protein [Arabidopsis lyrata su	0.990	0.913	0.483	1e-153
18420848	593	pentatricopeptide repeat-containing prot	0.981	0.897	0.494	1e-151
26449752	593	unknown protein [Arabidopsis thaliana]	0.985	0.900	0.491	1e-151
296083392	451	unnamed protein product [Vitis vinifera]	0.758	0.911	0.618	1e-148
356546358	577	PREDICTED: pentatricopeptide repeat-cont	0.957	0.899	0.492	1e-143
224115578	521	predicted protein [Populus trichocarpa]	0.837	0.871	0.517	1e-139
291622145	630	pentatricopeptide (PPR) repeat-containin	0.732	0.630	0.307	6e-58

>gi|359495888|ref|XP_003635109.1| PREDICTED: pentatricopeptide repeat-containing protein At5g24830-like [Vitis vinifera]

 Score =  627 bits (1618), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 324/581 (55%), Positives = 403/581 (69%), Gaps = 53/581 (9%)

Query: 1   MALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSN-----------SRTCSDDDNL 49
           MAL I   ES    H+   R      +SIK +VA+IF+N           +R     + L
Sbjct: 1   MALSIVFQES----HV-FFRLFNACIESIKHDVAQIFANVFSFKPYSPANNRPSGHGNLL 55

Query: 50  PCTLNDIMSYVGDQCRSKTRHWFS-NKDSDNEGNPQAVFNALDLILKENLDRLKTMRDT- 107
           P  L D++  VG+Q +  T+ WFS NK  D E +P+ VFN LD ILK++L+RLK MR++ 
Sbjct: 56  PFALEDLIISVGNQYQVTTQDWFSQNKGHDEERDPRVVFNVLDAILKDSLERLKMMRESV 115

Query: 108 -----GPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNE 162
                G   CTLE DY   VA+IR+LCL GK+  ALWLR KMIQKG +PDVLTHNYLVN 
Sbjct: 116 SLTKIGLNGCTLEMDYTGCVAMIRNLCLEGKLRAALWLRNKMIQKGVIPDVLTHNYLVNG 175

Query: 163 LCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPN 222
           LCK GDLEKAD+++REM E+ PSPNCAT+N FI GYC  N +DKAL+LFSTMAN+GI PN
Sbjct: 176 LCKAGDLEKADNLVREMLEIGPSPNCATFNTFIKGYCLNNNVDKALYLFSTMANSGIGPN 235

Query: 223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA 282
           +VT+NIL+HALCKKGLL DA K L ++L DD GK TSD+ITSTI MD   K GD  QAL 
Sbjct: 236 KVTYNILIHALCKKGLLKDARKLLEKILDDDCGKETSDIITSTIFMDGCLKKGDMVQALV 295

Query: 283 LWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLC 342
            W++M Q+  Q D+VAYNVLI+GFCL  D++SA+ YFC+M KRG LPD+ TYNTL++  C
Sbjct: 296 HWDEMLQRGTQIDVVAYNVLIHGFCLIQDMNSAYRYFCEMFKRGLLPDIFTYNTLISGFC 355

Query: 343 KQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPH 402
           K G LDEA + +GV+SK G APD ISYK IIQGLCIHGD+++A +FL+ MLE  +VPEP 
Sbjct: 356 KIGNLDEACYIHGVMSKMGAAPDLISYKMIIQGLCIHGDVIRANQFLVCMLENLMVPEPL 415

Query: 403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR-------------- 448
           IWNV+IDG+GR GDLSNA SIRD M+SFG+  NVFT+NALI A+ +              
Sbjct: 416 IWNVVIDGHGRHGDLSNALSIRDQMVSFGIPPNVFTYNALIHAQIKGGNIVDAHSIKKEM 475

Query: 449 ----------------GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNM 492
                           GA+CN G IH AL+LYDEMLRRG  PDIITYTELI+G C RG++
Sbjct: 476 LLNGIYPDVVTYNLLIGAACNFGRIHFALRLYDEMLRRGYEPDIITYTELIRGFCIRGHV 535

Query: 493 KEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDI 533
            EAEE+ AK+Q  GL+IDH PF+IL ++Y R +   +A D+
Sbjct: 536 MEAEELLAKLQRSGLSIDHAPFQILIQKYCRTRVPGRAYDL 576

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255574125|ref|XP_002527978.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223532604|gb|EEF34390.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  595 bits (1534), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 301/558 (53%), Positives = 391/558 (70%), Gaps = 45/558 (8%)

Query: 2   ALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSN--SRTCSDDDNLPCTLNDIMSY 59
           AL I+CGESS+  HI +LR L +  D+IK + A+IF+N   R    D N     +D++  
Sbjct: 3   ALLISCGESSASSHIFLLRLLDRAMDTIKHHTAQIFANIFCRESIIDPNASYFFDDMVKT 62

Query: 60  VGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDT--------GPVR 111
           + ++CR +      NK+ ++E +PQ VFN LD +LK +L+RLK+MR++        G   
Sbjct: 63  LSNRCRLRR----DNKNLNDEDDPQVVFNVLDAMLKGSLERLKSMRESIGISSVKVGLAG 118

Query: 112 CTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEK 171
            +++  Y  H +++RDLCL GK+G ALWLRRK++ KG VPD+LTHN+LVN LC  GDL+K
Sbjct: 119 RSVDVSYAGHASLVRDLCLAGKLGAALWLRRKLLHKGFVPDILTHNFLVNGLCNSGDLQK 178

Query: 172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH 231
           AD +I+EM E+ PSPNCAT+N FI GYC +N +DKAL+LFS+M+++G++PNRVT NILVH
Sbjct: 179 ADCLIKEMLEIGPSPNCATFNTFIKGYCLLNNVDKALYLFSSMSDSGVKPNRVTLNILVH 238

Query: 232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN 291
           ALCK+GLL DA K LGE+L DD+ KA  ++ITSTILMD   KNGD  QAL +W  M Q N
Sbjct: 239 ALCKRGLLEDAKKLLGELL-DDNEKARVNLITSTILMDGCIKNGDMVQALGIWYAMSQNN 297

Query: 292 IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEAS 351
              D VAYNVLI+GFCL  ++  A++Y C MLKRG LPD+ TYNTL++ LCK GKL EA 
Sbjct: 298 TLMDSVAYNVLIHGFCLTRNMKLAYSYSCDMLKRGLLPDIFTYNTLISGLCKAGKLYEAC 357

Query: 352 HFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGY 411
           + + V+ + GVAPDQISYK +IQGLC  GD++KA E L  MLEKS+VPE H+WN+IIDG+
Sbjct: 358 YIHDVMLRMGVAPDQISYKIVIQGLCTRGDVLKANEHLHCMLEKSMVPEAHVWNLIIDGF 417

Query: 412 GRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR----------------------- 448
            RCGD +NAFSIRD MLSFGV  NVFT+NALI A+ +                       
Sbjct: 418 ARCGDSANAFSIRDQMLSFGVVPNVFTYNALIHAQVKTGNIVDAYSLKKMMLCHGLFPDV 477

Query: 449 -------GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAK 501
                  G +CN G I +A+QLY EMLR G  PDIITYTELI+G C RGNMKEA+E+FAK
Sbjct: 478 ITYNLLIGTACNAGRISIAVQLYYEMLRSGHEPDIITYTELIRGLCMRGNMKEAKELFAK 537

Query: 502 IQTLGLAIDHIPFRILKK 519
           +Q  GL +DH+PF++L K
Sbjct: 538 LQNTGLTVDHVPFQLLIK 555

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442212|ref|XP_004138876.1| PREDICTED: pentatricopeptide repeat-containing protein At5g24830-like [Cucumis sativus] gi|449499387|ref|XP_004160802.1| PREDICTED: pentatricopeptide repeat-containing protein At5g24830-like [Cucumis sativus]

 Score =  553 bits (1426), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 290/581 (49%), Positives = 381/581 (65%), Gaps = 49/581 (8%)

Query: 6   ACGESSSPVHIQILRFLYQTFDSIKLNVARIFS----------NSRTCSDDDNLPCTLND 55
           A    S+P  I +L FL+   +S+K +++R+F+           +R+  D+D+L   L  
Sbjct: 4   ALAIESAPSQILVLGFLHGALNSLKRDISRMFAVFYGRPDIDEAARSNEDEDSLHPALKS 63

Query: 56  IMSYVGDQCRSKTRHWFSNKDSDN-EGNPQAVFNALDLILKENLDRLKTMRDT------G 108
           +M+ VGD C  ++   FS K + N EG+P AVFN LD +LK +LDRLKTMR++      G
Sbjct: 64  LMTTVGDHCDLRSSDCFSEKRNFNGEGDPGAVFNVLDALLKGSLDRLKTMRESICLAKSG 123

Query: 109 PVRCTLE-TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIG 167
             +C LE T    +  ++RDLCL GK G AL LRRK+I++G   D++THNYL+N LC   
Sbjct: 124 LQKCVLEATQQPDYTVMVRDLCLKGKFGAALLLRRKLIKEGFAVDLVTHNYLLNGLCINC 183

Query: 168 DLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHN 227
           D+E AD + REM EM PSPNCATYN  I G+C    +DKAL LF TM N+GIRP+R+T+N
Sbjct: 184 DMEMADSLFREMLEMGPSPNCATYNIIIKGFCLRMNMDKALDLFYTMVNSGIRPSRITYN 243

Query: 228 ILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDM 287
           IL+HALCK+G+L DA K L EV+  DD K T D ITSTILMDS FK+GD  QA+ALW+ M
Sbjct: 244 ILLHALCKRGILVDARKLL-EVILGDDIKTTDDAITSTILMDSCFKSGDTIQAVALWDKM 302

Query: 288 FQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKL 347
            +K  + D+VAYNVLI+G CLN D   A  Y   MLKRGFLPD+ TYNTL++  CK+G+ 
Sbjct: 303 VEKKTEIDVVAYNVLIHGLCLNQDKKIALGYVADMLKRGFLPDIFTYNTLISAFCKEGQF 362

Query: 348 DEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVI 407
            +A + + V+S+ GV+PDQI YK IIQ LC++GD +KA EFL SMLEKS+VPEPHIWN+I
Sbjct: 363 GDAYYIHDVMSRMGVSPDQILYKMIIQALCMNGDAIKADEFLHSMLEKSMVPEPHIWNLI 422

Query: 408 IDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRG------------------ 449
           ID YGR G LSNA S RD ML  GV  NVFT+NALI A+ RG                  
Sbjct: 423 IDCYGRYGYLSNAISKRDQMLVAGVQPNVFTYNALIHAQVRGGNIFSAYSLKKEMLLLGL 482

Query: 450 ------------ASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEE 497
                        +C  G +  ALQLYDEMLR+G   D ITYTELI GHC  G MKEAE+
Sbjct: 483 FPDVVTYNLLINGACKHGQLRFALQLYDEMLRKGYEADKITYTELINGHCMCGEMKEAED 542

Query: 498 VFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL 538
           +F ++   GL +D +PF+++ ++Y+++ E D A   +++ L
Sbjct: 543 LFFELHRSGLPMDIVPFKVIFEKYQKIGEPDMALKFYRRRL 583

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808491|ref|XP_002872129.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297317966|gb|EFH48388.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  546 bits (1408), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 277/573 (48%), Positives = 376/573 (65%), Gaps = 36/573 (6%)

Query: 1   MALFIACGESSSPVHIQILRFLYQTFDSIKLNVARIFSNSRTCSDDDNLPCT-LNDIMSY 59
           MALFI+CGE SS     +LR L Q+ D +  NV+RI +   T   D  +  + +    S 
Sbjct: 1   MALFISCGEVSSS-QFTLLRLLNQSLDFVSDNVSRILAPIVTNLRDFEMRLSCIERPSSI 59

Query: 60  VGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLETD-- 117
            G      T  WFS++  D + +P+A+FN LD ILK +LDRL ++R++       E D  
Sbjct: 60  SGKHSHLCTEKWFSDQ-KDQKRDPEAIFNVLDYILKSSLDRLASLRESVCQTKNFEYDDS 118

Query: 118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIR 177
              H +++RDLCL GK+  ALWLR KM++ G +P ++ HN+L+N LCK+G +EKAD ++R
Sbjct: 119 LSIHSSIMRDLCLQGKMDAALWLREKMLRSGFIPGLIMHNHLLNGLCKLGYIEKADGLVR 178

Query: 178 EMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG 237
           EM EM PSPNC +YN  I G C VN +DKAL+LFST+   GI+PNRVT NI+VHALC+KG
Sbjct: 179 EMREMGPSPNCVSYNTLIKGLCSVNNVDKALYLFSTLNKYGIKPNRVTCNIIVHALCQKG 238

Query: 238 LLGDA-VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDI 296
           ++G+   K L E+L      A  D++T TILMDS FKNG+  QAL +W +M QKN+ TD 
Sbjct: 239 VIGNNNTKLLEEILDSSQVNAPLDIVTCTILMDSCFKNGNVVQALEVWKEMSQKNVPTDS 298

Query: 297 VAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGV 356
           V YNV+I G C +G++ +A+ + C M+KRG  PDV TYNTL++ LCK GK D A   +G 
Sbjct: 299 VVYNVIIRGLCSSGNMVAAYGFMCDMVKRGVNPDVFTYNTLISALCKAGKFDVACDLHGT 358

Query: 357 LSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGD 416
           +   GVAPDQISYK IIQGLCI GD+ +A EFL SML++S++PE  +WNV+IDGYGR GD
Sbjct: 359 MQNVGVAPDQISYKVIIQGLCIQGDVDRANEFLQSMLKRSLLPEVLLWNVVIDGYGRYGD 418

Query: 417 LSNAFSIRDLMLSFGVSSNVFTFNALILAETR---------------------------- 448
            S A S+ +LMLS+GV  NV+T NALI    +                            
Sbjct: 419 TSCALSVLNLMLSYGVKPNVYTNNALIHGYVKGGRLIDAWWVKNEMRSTKIHPDTTTYNL 478

Query: 449 --GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLG 506
             GA+C LGH+ LA QLYDEML+RG  PDIITYTEL++G C +G +KEAE + +++Q  G
Sbjct: 479 LVGAACTLGHLRLAFQLYDEMLKRGCQPDIITYTELVRGLCWKGRLKEAESLLSRMQVSG 538

Query: 507 LAIDHIPFRILKKRYRRMKESDKARDIHQKWLL 539
           + +DH+PF IL K+Y R++  D+A  +++KWL+
Sbjct: 539 ITMDHVPFLILVKKYTRLQRPDEAYLVYKKWLV 571

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18420848|ref|NP_568460.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75154065|sp|Q8L6Y3.1|PP396_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g24830 gi|22655280|gb|AAM98230.1| putative protein [Arabidopsis thaliana] gi|30725398|gb|AAP37721.1| At5g24830 [Arabidopsis thaliana] gi|332005984|gb|AED93367.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  541 bits (1394), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 286/578 (49%), Positives = 380/578 (65%), Gaps = 46/578 (7%)

Query: 1   MALFIACGESSSPVHIQILRFLYQTFDSIKLNVAR----IFSNSRTCSDDDNLPCTLNDI 56
           MAL I+CGE +S     + R L Q+ D +  NV+R    IF+N R    +  L C +   
Sbjct: 1   MALLISCGEVTSS-QFTVFRLLNQSLDFVSDNVSRLLAPIFTNLR--DFEMRLSC-IERP 56

Query: 57  MSYVGDQCRSKTRHWFSN-KDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLE 115
            S  G+     T  WFS+ KD D + +P+A+FN LD ILK +LDRL ++R++  V  T  
Sbjct: 57  PSISGNHSHLCTEKWFSDQKDYDQKEDPEAIFNVLDYILKSSLDRLASLRES--VCQTKS 114

Query: 116 TDY----RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEK 171
            DY      H +++RDLCL GK+  ALWLR+KMI  G +P ++THN+L+N LCK G +EK
Sbjct: 115 FDYDDCLSIHSSIMRDLCLQGKLDAALWLRKKMIYSGVIPGLITHNHLLNGLCKAGYIEK 174

Query: 172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH 231
           AD ++REM EM PSPNC +YN  I G C VN +DKAL+LF+TM   GIRPNRVT NI+VH
Sbjct: 175 ADGLVREMREMGPSPNCVSYNTLIKGLCSVNNVDKALYLFNTMNKYGIRPNRVTCNIIVH 234

Query: 232 ALCKKGLLGDA-VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK 290
           ALC+KG++G+   K L E+L      A  D++  TILMDS FKNG+  QAL +W +M QK
Sbjct: 235 ALCQKGVIGNNNKKLLEEILDSSQANAPLDIVICTILMDSCFKNGNVVQALEVWKEMSQK 294

Query: 291 NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA 350
           N+  D V YNV+I G C +G++ +A+ + C M+KRG  PDV TYNTL++ LCK+GK DEA
Sbjct: 295 NVPADSVVYNVIIRGLCSSGNMVAAYGFMCDMVKRGVNPDVFTYNTLISALCKEGKFDEA 354

Query: 351 SHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDG 410
              +G +   GVAPDQISYK IIQGLCIHGD+ +A EFLLSML+ S++PE  +WNV+IDG
Sbjct: 355 CDLHGTMQNGGVAPDQISYKVIIQGLCIHGDVNRANEFLLSMLKSSLLPEVLLWNVVIDG 414

Query: 411 YGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR---------------------- 448
           YGR GD S+A S+ +LMLS+GV  NV+T NALI    +                      
Sbjct: 415 YGRYGDTSSALSVLNLMLSYGVKPNVYTNNALIHGYVKGGRLIDAWWVKNEMRSTKIHPD 474

Query: 449 --------GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFA 500
                   GA+C LGH+ LA QLYDEMLRRG  PDIITYTEL++G C +G +K+AE + +
Sbjct: 475 TTTYNLLLGAACTLGHLRLAFQLYDEMLRRGCQPDIITYTELVRGLCWKGRLKKAESLLS 534

Query: 501 KIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL 538
           +IQ  G+ IDH+PF IL K+Y R++   +A  +++KWL
Sbjct: 535 RIQATGITIDHVPFLILAKKYTRLQRPGEAYLVYKKWL 572

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|26449752|dbj|BAC41999.1| unknown protein [Arabidopsis thaliana]

 Score =  541 bits (1394), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 283/576 (49%), Positives = 379/576 (65%), Gaps = 42/576 (7%)

Query: 1   MALFIACGESSSPVHIQILRFLYQTFDSIKLNVAR----IFSNSRTCSDDDNLPCTLNDI 56
           MAL I+CGE +S     + R L Q+ D +  NV+R    IF+N R    +  L C +   
Sbjct: 1   MALLISCGEVTSS-QFTVFRLLNQSLDFVSDNVSRLLAPIFTNLRDL--EMRLSC-IERP 56

Query: 57  MSYVGDQCRSKTRHWFSN-KDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLE 115
            S  G+     T  WFS+ KD D + +P+A+FN LD ILK +LDRL ++R++     + +
Sbjct: 57  PSISGNHSHLCTEKWFSDQKDYDQKEDPEAIFNVLDYILKSSLDRLASLRESVCQAKSFD 116

Query: 116 TD--YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKAD 173
            D     H +++RDLCL GK+  ALWLR+KMI  G +P ++THN+L+N LCK G +EKAD
Sbjct: 117 YDDCLSIHSSIMRDLCLQGKLDAALWLRKKMIYSGVIPGLITHNHLLNGLCKAGYIEKAD 176

Query: 174 HVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHAL 233
            ++REM EM PSPNC +YN  I G C VN +DKAL+LF+TM   GIRPNRVT NI+VHAL
Sbjct: 177 GLVREMREMGPSPNCVSYNTLIKGLCSVNNVDKALYLFNTMNKYGIRPNRVTCNIIVHAL 236

Query: 234 CKKGLLGDA-VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI 292
           C+KG++G+   K L E+L      A  D++  TILMDS FKNG+  QAL +W +M QKN+
Sbjct: 237 CQKGVIGNNNKKLLEEILDSSQANAPLDIVICTILMDSCFKNGNVVQALEVWKEMSQKNV 296

Query: 293 QTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASH 352
             D V YNV+I G C +G++ +A+ + C M+KRG  PDV TYNTL++ LCK+GK DEA  
Sbjct: 297 PADSVVYNVIIRGLCSSGNMVAAYGFMCDMVKRGVNPDVFTYNTLISALCKEGKFDEACD 356

Query: 353 FYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYG 412
            +G +   GVAPDQISYK IIQGLCIHGD+ +A EFLLSML+ S++PE  +WNV+IDGYG
Sbjct: 357 LHGTMQNGGVAPDQISYKVIIQGLCIHGDVNRANEFLLSMLKSSLLPEVLLWNVVIDGYG 416

Query: 413 RCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR------------------------ 448
           R GD S+A S+ +LMLS+GV  NV+T NALI    +                        
Sbjct: 417 RYGDTSSALSVLNLMLSYGVKPNVYTNNALIHGYVKGGRLIDAWWVKNEMRSTKIHPDTT 476

Query: 449 ------GASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKI 502
                 GA+C LGH+ LA QLYDEMLRRG  PDIITYTEL++G C +G +K+AE + ++I
Sbjct: 477 TYNLLLGAACTLGHLRLAFQLYDEMLRRGCQPDIITYTELVRGLCWKGRLKKAESLLSRI 536

Query: 503 QTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL 538
           Q  G+ IDH+PF IL K+Y R++   +A  +++KWL
Sbjct: 537 QATGITIDHVPFLILAKKYTRLQRPGEAYLVYKKWL 572

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083392|emb|CBI23347.3| unnamed protein product [Vitis vinifera]

 Score =  532 bits (1371), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 261/422 (61%), Positives = 321/422 (76%), Gaps = 11/422 (2%)

Query: 112 CTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEK 171
           CTLE DY   VA+IR+LCL GK+  ALWLR KMIQKG +PDVLTHNYLVN LCK GDLEK
Sbjct: 18  CTLEMDYTGCVAMIRNLCLEGKLRAALWLRNKMIQKGVIPDVLTHNYLVNGLCKAGDLEK 77

Query: 172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH 231
           AD+++REM E+ PSPNCAT+N FI GYC  N +DKAL+LFSTMAN+GI PN+VT+NIL+H
Sbjct: 78  ADNLVREMLEIGPSPNCATFNTFIKGYCLNNNVDKALYLFSTMANSGIGPNKVTYNILIH 137

Query: 232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN 291
           ALCKKGLL DA K L ++L DD GK TSD+ITSTI MD   K GD  QAL  W++M Q+ 
Sbjct: 138 ALCKKGLLKDARKLLEKILDDDCGKETSDIITSTIFMDGCLKKGDMVQALVHWDEMLQRG 197

Query: 292 IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEAS 351
            Q D+VAYNVLI+GFCL  D++SA+ YFC+M KRG LPD+ TYNTL++  CK G LDEA 
Sbjct: 198 TQIDVVAYNVLIHGFCLIQDMNSAYRYFCEMFKRGLLPDIFTYNTLISGFCKIGNLDEAC 257

Query: 352 HFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGY 411
           + +GV+SK G APD ISYK IIQGLCIHGD+++A +FL+ MLE  +VPEP IWNV+IDG+
Sbjct: 258 YIHGVMSKMGAAPDLISYKMIIQGLCIHGDVIRANQFLVCMLENLMVPEPLIWNVVIDGH 317

Query: 412 GRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRG 471
           GR GDLSNA SIRD M+SFG+  NVFT+NALI A+ +G     G+I  A  +  EML  G
Sbjct: 318 GRHGDLSNALSIRDQMVSFGIPPNVFTYNALIHAQIKG-----GNIVDAHSIKKEMLLNG 372

Query: 472 ITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKAR 531
           I PD      LI+G C RG++ EAEE+ AK+Q  GL+IDH PF+IL ++Y R +   +A 
Sbjct: 373 IYPD------LIRGFCIRGHVMEAEELLAKLQRSGLSIDHAPFQILIQKYCRTRVPGRAY 426

Query: 532 DI 533
           D+
Sbjct: 427 DL 428

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356546358|ref|XP_003541593.1| PREDICTED: pentatricopeptide repeat-containing protein At5g24830-like [Glycine max]

 Score =  516 bits (1329), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 277/562 (49%), Positives = 353/562 (62%), Gaps = 43/562 (7%)

Query: 19  LRFLYQTFDSIKLNV-ARIFSNSRTCSDDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDS 77
           L FL +TF SIK  + ARI            +   ++D  S    +C        SN   
Sbjct: 17  LIFLNRTFLSIKRRLLARILRYQNDAVAHSRIFREVDD--SATEKKCELNAGDCLSN--- 71

Query: 78  DNEGNPQAVFNALDLILKENLDRLKTMRD------TG-PVRCTLETDYRRHVAVIRDLCL 130
           D      AVFNALD +LK++L+RLK MR+      TG  +    E+ Y    A IR LCL
Sbjct: 72  DGGNGRHAVFNALDTMLKDSLERLKMMRENLCLVKTGLTIGYACESKYAEDTATIRRLCL 131

Query: 131 GGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCAT 190
            GK+G A+WL  KM QKG V DV THN++VN LCKIG L+KAD V+REM E  P PNCAT
Sbjct: 132 DGKLGAAVWLWGKMAQKGVVSDVFTHNHIVNGLCKIGLLDKADLVVREMLEFGPRPNCAT 191

Query: 191 YNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVL 250
           YN  I GYC VN +D+AL+LFSTM   GI PNRVT  ILVHALC+KGLL +A + L EVL
Sbjct: 192 YNTLIKGYCAVNGVDRALYLFSTMTYAGILPNRVTCRILVHALCEKGLLMEAKRMLEEVL 251

Query: 251 ADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG 310
            DDD K   D++ ST+ MDSYFK+G   QAL LWN M Q   + D+VAYNVLINGFC + 
Sbjct: 252 KDDDEKDIPDLVISTVFMDSYFKDGAIIQALNLWNQMLQNCTKVDVVAYNVLINGFCKSQ 311

Query: 311 DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYK 370
            ++ A+ Y C+M K+G LPD  TYN ++  LCK+GK+ EA +  GV+S  G+ PDQI+Y+
Sbjct: 312 QMNLAYGYACEMFKKGLLPDAFTYNIIIGALCKEGKISEACYTVGVMSNMGIMPDQITYQ 371

Query: 371 TIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF 430
            +I+GLC  G+IV+A+  L  ML   +VP+P IWN+IID YGR  DLSNAF  RD MLSF
Sbjct: 372 IVIRGLCFAGEIVRAKHLLWCMLNNLMVPKPLIWNLIIDLYGRYNDLSNAFFTRDQMLSF 431

Query: 431 GVSSNVFTFNALILAETR------------------------------GASCNLGHIHLA 460
           GV  NVFT+NALILA+ +                              GA+CN+G +  A
Sbjct: 432 GVCPNVFTYNALILAQVKSGNFHGACSLKEEMISKCLFPDVVTYNLLIGAACNIGRLDFA 491

Query: 461 LQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKR 520
           L L+D+M++RG  PD+ITYTEL++G C RG MKEAEE++AKI   GL  DH+P +IL  +
Sbjct: 492 LLLHDQMVQRGYEPDLITYTELVRGFCIRGKMKEAEELYAKILKSGLLNDHVPVQILFNK 551

Query: 521 YRRMKESDKARDIHQKWLLRNK 542
           Y ++KE   A + +Q WL   K
Sbjct: 552 YCKLKEPVIAFNFYQDWLESKK 573

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115578|ref|XP_002332091.1| predicted protein [Populus trichocarpa] gi|222874911|gb|EEF12042.1| predicted protein [Populus trichocarpa]

 Score =  500 bits (1288), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 264/510 (51%), Positives = 338/510 (66%), Gaps = 56/510 (10%)

Query: 73  SNKDSDNEGNPQAVFNALDLILKENLDRLKTMR--------DTGPVRCTLETDYRRHVAV 124
           +NK  D  G    VFN LD +LK +LDRLK+MR          G   C L+ +   + A+
Sbjct: 11  NNKQGDGGGGDPLVFNVLDSMLKGSLDRLKSMRLQFVSFLYGKGITGCALDVNCAGNEAI 70

Query: 125 IRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRP 184
           I+DLCLGGK+G ALWLR KMIQKG VPDVLTHNY+VN LCK+ +LEKAD +IREM +  P
Sbjct: 71  IKDLCLGGKLGPALWLRSKMIQKGFVPDVLTHNYMVNGLCKMIELEKADWLIREMLDKGP 130

Query: 185 SPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVK 244
           SPNCATYN FI GYC ++++DKALHLFS+MAN+G +PNRVT N L+HALCKK LL +  K
Sbjct: 131 SPNCATYNTFIKGYCLLDKVDKALHLFSSMANSGTKPNRVTFNTLLHALCKKDLLTEGKK 190

Query: 245 FLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN 304
            LGE+L  DDG+  +           +F    ++ + A +            + +NV   
Sbjct: 191 LLGEIL--DDGRKGNIKCYHLNYTYGWFYQEWRYSSGAWY------------LGFNV--G 234

Query: 305 GFCLNG--DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV 362
           G   NG  ++  A++Y CQMLK G LPDV TYNTL++ LCK GKLDEA + + V+ + GV
Sbjct: 235 GGYPNGSREMKLAYSYSCQMLKMGLLPDVFTYNTLVSSLCKSGKLDEACYMHDVMLRMGV 294

Query: 363 APDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFS 422
           APD++SYK IIQGLC+ GD+ KA  +L   LEKS++PEP +WN+IIDGYGRCGD+ NAF+
Sbjct: 295 APDEVSYKLIIQGLCVCGDVDKANGYLNCTLEKSMIPEPLVWNLIIDGYGRCGDICNAFA 354

Query: 423 IRDLMLSFGVSSNVFTFNALILAETR------------------------------GASC 452
           IRD MLSFGV  NVFT+NALI A+ +                              GA+ 
Sbjct: 355 IRDRMLSFGVVPNVFTYNALIHAQVKIGNILYAYFLKKDMLLKGLFPDVVTYNLLIGAAA 414

Query: 453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHI 512
           + GHIH ALQLYDEMLR G  PD+ITYTELI+G+C + N KEAEE+ AK+   GL IDH+
Sbjct: 415 HAGHIHYALQLYDEMLRGGCNPDMITYTELIRGYCVKYNTKEAEELLAKLLKSGLLIDHV 474

Query: 513 PFRILKKRYRRMKESDKARDIHQKWLLRNK 542
           PF+IL K+Y +MKE D+A  +++KWL  NK
Sbjct: 475 PFQILIKQYCKMKEPDRAFQLYRKWLTGNK 504

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|291622145|emb|CBJ23782.1| pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

 Score =  231 bits (589), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 125/407 (30%), Positives = 221/407 (54%), Gaps = 10/407 (2%)

Query: 124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
           +I  L L  K   A+ L  +M+ +G  PD+ T+  +VN LCK GD++ A  ++++M + +
Sbjct: 192 LIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLALSLLKKMEKGK 251

Query: 184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
              N   YN  I G C+   +D A  LF+ M   GI+P+  T+N L+  LC  G   DA 
Sbjct: 252 IEANVVIYNTIIDGLCKYKHMDDAFDLFNKMETKGIKPDVFTYNSLISCLCNYGRWSDAS 311

Query: 244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
           + L +++   + K   +V+T   L+D++ K G   +A  L+++M Q++I  +IV YN LI
Sbjct: 312 RLLSDMI---ERKINPNVVTFNSLIDAFAKEGKLIEAEKLFDEMIQRSIDPNIVTYNSLI 368

Query: 304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
           NGFC++  +  A   F  M+ +  LPDV+TYNTL+   CK  +++E    +  +S+ G+ 
Sbjct: 369 NGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLV 428

Query: 364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
            + ++Y T+IQGL   GD   A++    M+   V P+   +++++DG  + G L  A  +
Sbjct: 429 GNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKALVV 488

Query: 424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
            + +    +  N++T+N +I        C  G +     L+  +  +G+ P++I YT +I
Sbjct: 489 FEYLQKSKMEPNIYTYNIMI-----EGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTTMI 543

Query: 484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
            G C +G  +EA+ +F +++  G   D   +  L +   R+++ DKA
Sbjct: 544 SGFCRKGLKEEADALFREMKEDGTLPDSGCYNTLIR--ARLRDGDKA 588

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	542
TAIR|locus:2149433	593	AT5G24830 [Arabidopsis thalian	0.928	0.848	0.482	1.7e-123
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.691	0.595	0.315	2.5e-56
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.732	0.631	0.297	4.8e-55
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.712	0.623	0.307	2.1e-54
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.693	0.686	0.322	3.4e-54
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.732	0.630	0.287	1.1e-53
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.732	0.626	0.289	1.5e-53
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.732	0.646	0.297	3.8e-53
TAIR|locus:2015213	629	AT1G63150 [Arabidopsis thalian	0.686	0.591	0.315	4.9e-53
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.691	0.649	0.300	1.3e-52

TAIR|locus:2149433 AT5G24830 [Arabidopsis thaliana (taxid:3702)]

 Score = 1214 (432.4 bits), Expect = 1.7e-123, P = 1.7e-123
 Identities = 253/524 (48%), Positives = 341/524 (65%)

Query:     1 MALFIACGESSSPVHIQILRFLYQTFDSIKLNVAR----IFSNSRTCSDDDNLPCTLNDI 56
             MAL I+CGE +S     + R L Q+ D +  NV+R    IF+N R    +  L C +   
Sbjct:     1 MALLISCGEVTSS-QFTVFRLLNQSLDFVSDNVSRLLAPIFTNLRDF--EMRLSC-IERP 56

Query:    57 MSYVGDQCRSKTRHWFSN-KDSDNEGNPQAVFNALDLILKENLDRLKTMRDTGPVRCTLE 115
              S  G+     T  WFS+ KD D + +P+A+FN LD ILK +LDRL ++R++  V  T  
Sbjct:    57 PSISGNHSHLCTEKWFSDQKDYDQKEDPEAIFNVLDYILKSSLDRLASLRES--VCQTKS 114

Query:   116 TDYRR----HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEK 171
              DY      H +++RDLCL GK+  ALWLR+KMI  G +P ++THN+L+N LCK G +EK
Sbjct:   115 FDYDDCLSIHSSIMRDLCLQGKLDAALWLRKKMIYSGVIPGLITHNHLLNGLCKAGYIEK 174

Query:   172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH 231
             AD ++REM EM PSPNC +YN  I G C VN +DKAL+LF+TM   GIRPNRVT NI+VH
Sbjct:   175 ADGLVREMREMGPSPNCVSYNTLIKGLCSVNNVDKALYLFNTMNKYGIRPNRVTCNIIVH 234

Query:   232 ALCKKGLLGDA-VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK 290
             ALC+KG++G+   K L E+L      A  D++  TILMDS FKNG+  QAL +W +M QK
Sbjct:   235 ALCQKGVIGNNNKKLLEEILDSSQANAPLDIVICTILMDSCFKNGNVVQALEVWKEMSQK 294

Query:   291 NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA 350
             N+  D V YNV+I G C +G++ +A+ + C M+KRG  PDV TYNTL++ LCK+GK DEA
Sbjct:   295 NVPADSVVYNVIIRGLCSSGNMVAAYGFMCDMVKRGVNPDVFTYNTLISALCKEGKFDEA 354

Query:   351 SHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDG 410
                +G +   GVAPDQISYK IIQGLCIHGD+ +A EFLLSML+ S++PE  +WNV+IDG
Sbjct:   355 CDLHGTMQNGGVAPDQISYKVIIQGLCIHGDVNRANEFLLSMLKSSLLPEVLLWNVVIDG 414

Query:   411 YGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRR 470
             YGR GD S+A S+ +LMLS+GV  NV+T NALI    +G     G +  A  + +EM   
Sbjct:   415 YGRYGDTSSALSVLNLMLSYGVKPNVYTNNALIHGYVKG-----GRLIDAWWVKNEMRST 469

Query:   471 GITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPF 514
              I PD  TY  L+   C  G+++ A +++ ++   G   D I +
Sbjct:   470 KIHPDTTTYNLLLGAACTLGHLRLAFQLYDEMLRRGCQPDIITY 513

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

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

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

GO:0045132 "meiotic chromosome segregation" evidence=RCA

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

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 121/383 (31%), Positives = 207/383 (54%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  L L  K   A+ L  +M+ KG  PD++T+  +VN LCK GD + A +++ +M + +
Sbjct:   192 LIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLLNKMEQGK 251

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
               P    YN  I G C+   +D AL+LF  M   GIRPN VT++ L+  LC  G   DA 
Sbjct:   252 LEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNYGRWSDAS 311

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L +++   + K   DV T + L+D++ K G   +A  L+++M +++I   IV Y+ LI
Sbjct:   312 RLLSDMI---ERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLI 368

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +   PDV+TYNTL+   CK  +++E    +  +S+ G+ 
Sbjct:   369 NGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLV 428

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y  +IQGL   GD   A+E    M+   V P    +N ++DG  + G L  A  +
Sbjct:   429 GNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVV 488

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + +    +   ++T+N +I     G  C  G +     L+  +  +G+ PD++ Y  +I
Sbjct:   489 FEYLQRSKMEPTIYTYNIMI----EGM-CKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMI 543

Query:   484 KGHCARGNMKEAEEVFAKIQTLG 506
              G C +G+ +EA+ +F +++  G
Sbjct:   544 SGFCRKGSKEEADALFKEMKEDG 566

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 568 (205.0 bits), Expect = 4.8e-55, P = 4.8e-55
 Identities = 121/407 (29%), Positives = 222/407 (54%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  L L  K   A+ L  +M+ +G  PD+ T+  +VN LCK GD++ A  ++++M + +
Sbjct:   191 LIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLALSLLKKMEKGK 250

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
                +   Y   I   C    ++ AL+LF+ M N GIRPN VT+N L+  LC  G   DA 
Sbjct:   251 IEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDAS 310

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L +++   + K   +V+T + L+D++ K G   +A  L+++M +++I  DI  Y+ LI
Sbjct:   311 RLLSDMI---ERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLI 367

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +   P+V+TYNTL+   CK  +++E    +  +S+ G+ 
Sbjct:   368 NGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLV 427

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y T+IQGL   GD   A++    M+   V P+   +++++DG  + G L  A  +
Sbjct:   428 GNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKALVV 487

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + +    +  +++T+N +I     G  C  G +     L+  +  +G+ P++I YT +I
Sbjct:   488 FEYLQKSKMEPDIYTYNIMI----EGM-CKAGKVEDGWDLFCSLSLKGVKPNVIIYTTMI 542

Query:   484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
              G C +G  +EA+ +F +++  G   +   +  L +   R+++ DKA
Sbjct:   543 SGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRA--RLRDGDKA 587

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 121/394 (30%), Positives = 205/394 (52%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  LCL G++  AL L  +M++ G  PD +T+  ++N LCK G+   A  + R+M E  
Sbjct:   181 LINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERN 240

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
                +   Y+  I   C+    D AL LF+ M   GI+ + VT++ L+  LC  G   D  
Sbjct:   241 IKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGA 300

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             K L E++  +      DV+T + L+D + K G   +A  L+N+M  + I  D + YN LI
Sbjct:   301 KMLREMIGRN---IIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLI 357

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             +GFC    +  A   F  M+ +G  PD++TY+ L+N  CK  ++D+    +  +S  G+ 
Sbjct:   358 DGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLI 417

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
             P+ I+Y T++ G C  G +  A+E    M+ + V P    + +++DG    G+L+ A  I
Sbjct:   418 PNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEI 477

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + M    ++  +  +N +I     G  CN   +  A  L+  +  +G+ PD++TY  +I
Sbjct:   478 FEKMQKSRMTLGIGIYNIII----HGM-CNASKVDDAWSLFCSLSDKGVKPDVVTYNVMI 532

Query:   484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRIL 517
              G C +G++ EA+ +F K++  G   D   + IL
Sbjct:   533 GGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNIL 566

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026207 AT1G62680 [Arabidopsis thaliana (taxid:3702)]

 Score = 560 (202.2 bits), Expect = 3.4e-54, P = 3.4e-54
 Identities = 124/384 (32%), Positives = 205/384 (53%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             VI   C   ++  AL +  KM++ G  PD +T   LVN  C+   +  A  ++ +M E+ 
Sbjct:   126 VINCFCCCFQVSLALSILGKMLKLGYEPDRVTIGSLVNGFCRRNRVSDAVSLVDKMVEIG 185

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
               P+   YNA I   C+   ++ A   F  +   GIRPN VT+  LV+ LC      DA 
Sbjct:   186 YKPDIVAYNAIIDSLCKTKRVNDAFDFFKEIERKGIRPNVVTYTALVNGLCNSSRWSDAA 245

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L +++     K T +VIT + L+D++ KNG   +A  L+ +M + +I  DIV Y+ LI
Sbjct:   246 RLLSDMIKK---KITPNVITYSALLDAFVKNGKVLEAKELFEEMVRMSIDPDIVTYSSLI 302

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NG CL+  I  A   F  M+ +G L DV++YNTL+N  CK  ++++    +  +S+ G+ 
Sbjct:   303 NGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLINGFCKAKRVEDGMKLFREMSQRGLV 362

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y T+IQG    GD+ KA+EF   M    + P+   +N+++ G    G+L  A  I
Sbjct:   363 SNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISPDIWTYNILLGGLCDNGELEKALVI 422

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + M    +  ++ T+  +I    RG  C  G +  A  L+  +  +G+ PDI+TYT ++
Sbjct:   423 FEDMQKREMDLDIVTYTTVI----RGM-CKTGKVEEAWSLFCSLSLKGLKPDIVTYTTMM 477

Query:   484 KGHCARGNMKEAEEVFAKIQTLGL 507
              G C +G + E E ++ K++  GL
Sbjct:   478 SGLCTKGLLHEVEALYTKMKQEGL 501

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 555 (200.4 bits), Expect = 1.1e-53, P = 1.1e-53
 Identities = 117/407 (28%), Positives = 220/407 (54%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  L    +   A+ L  +M+ KG  PD++T+  +VN LCK GD++ A  ++++M + +
Sbjct:   192 LIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDIDLALSLLKKMEQGK 251

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
               P    YN  I   C    ++ AL+LF+ M N GIRPN VT+N L+  LC  G   DA 
Sbjct:   252 IEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDAS 311

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L +++   + K   +V+T + L+D++ K G   +A  L+++M +++I  DI  Y+ LI
Sbjct:   312 RLLSDMI---ERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLI 368

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +   P+V+TYNTL+   CK  ++DE    +  +S+ G+ 
Sbjct:   369 NGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMELFREMSQRGLV 428

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y T+I G     +   A+     M+   V+P+   +++++DG    G +  A  +
Sbjct:   429 GNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCNNGKVETALVV 488

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + +    +  +++T+N +I     G  C  G +     L+  +  +G+ P+++TYT ++
Sbjct:   489 FEYLQRSKMEPDIYTYNIMI----EGM-CKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMM 543

Query:   484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
              G C +G  +EA+ +F +++  G   D   +  L + +  +++ DKA
Sbjct:   544 SGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAH--LRDGDKA 588

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 554 (200.1 bits), Expect = 1.5e-53, P = 1.5e-53
 Identities = 118/407 (28%), Positives = 217/407 (53%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  L L  K   A+ L  +M+Q+G  P+++T+  +VN LCK GD + A +++ +M   +
Sbjct:   196 LIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDTDLALNLLNKMEAAK 255

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
                +   +N  I   C+   +D AL+LF  M   GIRPN VT++ L+  LC  G   DA 
Sbjct:   256 IEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLISCLCSYGRWSDAS 315

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L +++   + K   +++T   L+D++ K G   +A  L++DM +++I  DI  YN L+
Sbjct:   316 QLLSDMI---EKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSIDPDIFTYNSLV 372

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +   PDV+TYNTL+   CK  ++++ +  +  +S  G+ 
Sbjct:   373 NGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTELFREMSHRGLV 432

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              D ++Y T+IQGL   GD   A++    M+   V P+   +++++DG    G L  A  +
Sbjct:   433 GDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLCNNGKLEKALEV 492

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              D M    +  +++ +  +I     G  C  G +     L+  +  +G+ P+++TY  +I
Sbjct:   493 FDYMQKSEIKLDIYIYTTMI----EGM-CKAGKVDDGWDLFCSLSLKGVKPNVVTYNTMI 547

Query:   484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
              G C++  ++EA  +  K++  G   +   +  L + +  +++ DKA
Sbjct:   548 SGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAH--LRDGDKA 592

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 550 (198.7 bits), Expect = 3.8e-53, P = 3.8e-53
 Identities = 121/407 (29%), Positives = 216/407 (53%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             ++  L    K   A+ L  +M+ KG  PD++T+  ++N LCK G+ + A +++ +M + +
Sbjct:   176 LVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGAVINGLCKRGEPDLALNLLNKMEKGK 235

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
                +   Y+  I   C+   +D AL+LF+ M N GIRP+  T++ L+  LC  G   DA 
Sbjct:   236 IEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNKGIRPDVFTYSSLISCLCNYGRWSDAS 295

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L ++L   + K   +V+T   L+D++ K G   +A  L+++M Q++I  +IV YN LI
Sbjct:   296 RLLSDML---ERKINPNVVTFNSLIDAFAKEGKLIEAEKLFDEMIQRSIDPNIVTYNSLI 352

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +  LPDV+TYNTL+N  CK  K+ +    +  +S+ G+ 
Sbjct:   353 NGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLINGFCKAKKVVDGMELFRDMSRRGLV 412

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y T+I G     D   A+     M+   V P    +N ++DG  + G L  A  +
Sbjct:   413 GNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVV 472

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + +    +  +++T+N  I++E     C  G +     L+  +  +G+ PD+I Y  +I
Sbjct:   473 FEYLQKSKMEPDIYTYN--IMSE---GMCKAGKVEDGWDLFCSLSLKGVKPDVIAYNTMI 527

Query:   484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
              G C +G  +EA  +F K++  G   D   +  L + +  +++ DKA
Sbjct:   528 SGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAH--LRDGDKA 572

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015213 AT1G63150 [Arabidopsis thaliana (taxid:3702)]

 Score = 549 (198.3 bits), Expect = 4.9e-53, P = 4.9e-53
 Identities = 121/383 (31%), Positives = 206/383 (53%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  L L  K   A+ L  +M+Q+G  PD++T+  +VN LCK GD++ A +++ +M   R
Sbjct:   194 LIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDLALNLLNKMEAAR 253

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
                N   +N  I   C+   ++ A+ LF+ M   GIRPN VT+N L++ LC  G   DA 
Sbjct:   254 IKANVVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIRPNVVTYNSLINCLCNYGRWSDAS 313

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L  +L   + K   +V+T   L+D++FK G   +A  L  +M Q++I  D + YN+LI
Sbjct:   314 RLLSNML---EKKINPNVVTFNALIDAFFKEGKLVEAEKLHEEMIQRSIDPDTITYNLLI 370

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +  LP++ TYNTL+N  CK  ++++    +  +S+ G+ 
Sbjct:   371 NGFCMHNRLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCKCKRVEDGVELFREMSQRGLV 430

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y TIIQG    GD   A+     M+   V  +   +++++ G    G L  A  I
Sbjct:   431 GNTVTYTTIIQGFFQAGDCDSAQMVFKQMVSNRVPTDIMTYSILLHGLCSYGKLDTALVI 490

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
                +    +  N+F +N +I     G  C  G +  A  L+  +    I PD++TY  +I
Sbjct:   491 FKYLQKSEMELNIFIYNTMI----EGM-CKAGKVGEAWDLFCSL---SIKPDVVTYNTMI 542

Query:   484 KGHCARGNMKEAEEVFAKIQTLG 506
              G C++  ++EA+++F K++  G
Sbjct:   543 SGLCSKRLLQEADDLFRKMKEDG 565

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 545 (196.9 bits), Expect = 1.3e-52, P = 1.3e-52
 Identities = 115/383 (30%), Positives = 204/383 (53%)

Query:   124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR 183
             +I  L L  K   A+ L  +M+Q+G  P+++T+  +VN LCK GD++ A +++ +M   +
Sbjct:   196 LIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDLAFNLLNKMEAAK 255

Query:   184 PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV 243
                N   Y+  I   C+    D AL+LF+ M N G+RPN +T++ L+  LC      DA 
Sbjct:   256 IEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLISCLCNYERWSDAS 315

Query:   244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI 303
             + L +++   + K   +V+T   L+D++ K G   +A  L+++M +++I  DI  Y+ LI
Sbjct:   316 RLLSDMI---ERKINPNVVTFNALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLI 372

Query:   304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA 363
             NGFC++  +  A   F  M+ +   P+V+TYNTL+N  CK  ++DE    +  +S+ G+ 
Sbjct:   373 NGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLINGFCKAKRIDEGVELFREMSQRGLV 432

Query:   364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI 423
              + ++Y T+I G     D   A+     M+   V P    +N ++DG  + G L  A  +
Sbjct:   433 GNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVV 492

Query:   424 RDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI 483
              + +    +   ++T+N +I     G  C  G +     L+  +  +G+ PD+I Y  +I
Sbjct:   493 FEYLQRSKMEPTIYTYNIMI----EGM-CKAGKVEDGWDLFCSLSLKGVKPDVIIYNTMI 547

Query:   484 KGHCARGNMKEAEEVFAKIQTLG 506
              G C +G  +EA+ +F K++  G
Sbjct:   548 SGFCRKGLKEEADALFRKMREDG 570

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8L6Y3	PP396_ARATH	No assigned EC number	0.4948	0.9815	0.8971	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: GSVIVG00004182001 SubName- Full=Chromosome undetermined scaffold_621, whole genome shotgun sequence; (442 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	542
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-24
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-21
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-17
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
pfam01535	31	pfam01535, PPR, PPR repeat	7e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	3e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam10037	417	pfam10037, MRP-S27, Mitochondrial 28S ribosomal pr	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.003

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

 Score =  107 bits (269), Expect = 2e-24
 Identities = 88/386 (22%), Positives = 151/386 (39%), Gaps = 45/386 (11%)

Query: 150 VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALH 209
            P + T N L++      D++ A  V+R + E     +C  Y   I+   +  ++D    
Sbjct: 434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFE 493

Query: 210 LFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD 269
           +F  M N G+  N       VH                               T   L+D
Sbjct: 494 VFHEMVNAGVEAN-------VH-------------------------------TFGALID 515

Query: 270 SYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG--F 327
              + G   +A   +  M  KN++ D V +N LI+    +G +  AF    +M       
Sbjct: 516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI 575

Query: 328 LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKARE 387
            PD IT   L+      G++D A   Y ++ +  +      Y   +      GD   A  
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 388 FLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAET 447
               M +K V P+   ++ ++D  G  GDL  AF I       G+     ++++L+    
Sbjct: 636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM---- 691

Query: 448 RGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGL 507
            GA  N  +   AL+LY+++    + P + T   LI   C    + +A EV ++++ LGL
Sbjct: 692 -GACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL 750

Query: 508 AIDHIPFRILKKRYRRMKESDKARDI 533
             + I + IL     R  ++D   D+
Sbjct: 751 CPNTITYSILLVASERKDDADVGLDL 776

Length = 1060

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

 Score = 97.3 bits (242), Expect = 4e-21
 Identities = 80/345 (23%), Positives = 137/345 (39%), Gaps = 13/345 (3%)

Query: 148 GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKA 207
           G   D   +  L++   K G ++    V  EM       N  T+ A I G  R  ++ KA
Sbjct: 467 GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Query: 208 LHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKAT---SDVITS 264
              +  M +  ++P+RV  N L+ A  + G    AV    +VLA+   +      D IT 
Sbjct: 527 FGAYGIMRSKNVKPDRVVFNALISACGQSG----AVDRAFDVLAEMKAETHPIDPDHITV 582

Query: 265 TILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK 324
             LM +    G   +A  ++  + + NI+     Y + +N     GD   A + +  M K
Sbjct: 583 GALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

Query: 325 RGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVK 384
           +G  PD + ++ L++     G LD+A        K G+    +SY +++       +  K
Sbjct: 643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

Query: 385 AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALIL 444
           A E    +    + P     N +I        L  A  +   M   G+  N  T++ L++
Sbjct: 703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV 762

Query: 445 AETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCAR 489
           A  R          + L L  +    GI P+++    +  G C R
Sbjct: 763 ASERK-----DDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCLR 801

Length = 1060

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

 Score = 74.7 bits (185), Expect = 4e-17
 Identities = 23/49 (46%), Positives = 32/49 (65%)

Query: 295 DIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK 343
           D+V YN LI+G+C  G +  A   F +M KRG  P+V TY+ L++ LCK
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 83.0 bits (205), Expect = 1e-16
 Identities = 72/315 (22%), Positives = 124/315 (39%), Gaps = 55/315 (17%)

Query: 190 TYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHN--ILVHALCKKGLLGDAVKFLG 247
           TY+A +     +  +     ++  + ++G  P++   N  +L+H  C  G+L DA +   
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKC--GMLIDARR--- 179

Query: 248 EVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC 307
                                              L+++M ++N+     ++  +I G  
Sbjct: 180 -----------------------------------LFDEMPERNL----ASWGTIIGGLV 200

Query: 308 LNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQI 367
             G+   AFA F +M + G   +  T+  +L      G        +  + KTGV  D  
Sbjct: 201 DAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTF 260

Query: 368 SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLM 427
               +I      GDI  AR     M EK+ V     WN ++ GY   G    A  +   M
Sbjct: 261 VSCALIDMYSKCGDIEDARCVFDGMPEKTTVA----WNSMLAGYALHGYSEEALCLYYEM 316

Query: 428 LSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHC 487
              GVS + FTF+ +I   +R     L  +  A Q +  ++R G   DI+  T L+  + 
Sbjct: 317 RDSGVSIDQFTFSIMIRIFSR-----LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS 371

Query: 488 ARGNMKEAEEVFAKI 502
             G M++A  VF ++
Sbjct: 372 KWGRMEDARNVFDRM 386

Length = 697

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

 Score = 81.1 bits (200), Expect = 5e-16
 Identities = 57/268 (21%), Positives = 110/268 (41%), Gaps = 7/268 (2%)

Query: 144 MIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREM-SEMRP-SPNCATYNAFITGYCRV 201
           M  K   PD +  N L++   + G +++A  V+ EM +E  P  P+  T  A +      
Sbjct: 533 MRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA 592

Query: 202 NELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDV 261
            ++D+A  ++  +    I+     + I V++  +KG    A+    ++          D 
Sbjct: 593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG---VKPDE 649

Query: 262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN-GDISSAFAYFC 320
           +  + L+D     GD  +A  +  D  ++ I+   V+Y+ L+ G C N  +   A   + 
Sbjct: 650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM-GACSNAKNWKKALELYE 708

Query: 321 QMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG 380
            +      P V T N L+  LC+  +L +A      + + G+ P+ I+Y  ++       
Sbjct: 709 DIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKD 768

Query: 381 DIVKAREFLLSMLEKSVVPEPHIWNVII 408
           D     + L    E  + P   +   I 
Sbjct: 769 DADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score = 80.7 bits (199), Expect = 7e-16
 Identities = 101/410 (24%), Positives = 162/410 (39%), Gaps = 74/410 (18%)

Query: 152 DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLF 211
           DV+  N L+    K GD+  A  V   M    P  +C ++NA I+GY    E  + L LF
Sbjct: 223 DVV--NALITMYVKCGDVVSARLVFDRM----PRRDCISWNAMISGYFENGECLEGLELF 276

Query: 212 STMANNGIRPNRVTHNILVHALCKKGLLGD----------AVK--FLGEV---------- 249
            TM    + P+ +T   ++ A     LLGD           VK  F  +V          
Sbjct: 277 FTMRELSVDPDLMTITSVISA---CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMY 333

Query: 250 ----LADDDGKATS-----DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD-IVAY 299
                  +  K  S     D ++ T ++  Y KNG   +AL  +  M Q N+  D I   
Sbjct: 334 LSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA 393

Query: 300 NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK 359
           +VL    CL GD+           ++G +  V+  N L+    K   +D+A   +  + +
Sbjct: 394 SVLSACACL-GDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

Query: 360 TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSN 419
             V    IS+ +II GL ++    +A  F   ML  ++ P        +    R G L  
Sbjct: 453 KDV----ISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMC 507

Query: 420 AFSIRDLMLSFGVSSNVFTFNALI-----------------LAETRGASCNL-------- 454
              I   +L  G+  + F  NAL+                   E    S N+        
Sbjct: 508 GKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAH 567

Query: 455 GHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNM-KEAEEVFAKIQ 503
           G   +A++L++ M+  G+ PD +T+  L+   C+R  M  +  E F  ++
Sbjct: 568 GKGSMAVELFNRMVESGVNPDEVTFISLLCA-CSRSGMVTQGLEYFHSME 616

Length = 857

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

 Score = 69.4 bits (171), Expect = 3e-15
 Identities = 23/50 (46%), Positives = 34/50 (68%)

Query: 186 PNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK 235
           P+  TYN  I GYC+  ++++AL LF+ M   GI+PN  T++IL+  LCK
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 78.4 bits (193), Expect = 3e-15
 Identities = 71/285 (24%), Positives = 123/285 (43%), Gaps = 22/285 (7%)

Query: 129 CLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNC 188
           CLG  +   + L     +KG +  V+  N L+    K   ++KA  V   +    P  + 
Sbjct: 401 CLG-DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI----PEKDV 455

Query: 189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGE 248
            ++ + I G    N   +AL  F  M    ++PN VT    + A  + G L    +    
Sbjct: 456 ISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAH 514

Query: 249 VLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQT-DIVAYNVLINGFC 307
           VL    G    D      L+D Y + G    A   WN   Q N    D+V++N+L+ G+ 
Sbjct: 515 VLRTGIG---FDGFLPNALLDLYVRCGRMNYA---WN---QFNSHEKDVVSWNILLTGYV 565

Query: 308 LNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKL--DEASHFYGVLSKTGVAPD 365
            +G  S A   F +M++ G  PD +T+ +LL C C +  +      +F+ +  K  + P+
Sbjct: 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLL-CACSRSGMVTQGLEYFHSMEEKYSITPN 624

Query: 366 QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDG 410
              Y  ++  L   G + +A  F+  M    + P+P +W  +++ 
Sbjct: 625 LKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA 666

Length = 857

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

 Score = 78.0 bits (192), Expect = 4e-15
 Identities = 75/304 (24%), Positives = 124/304 (40%), Gaps = 19/304 (6%)

Query: 144 MIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE 203
           +   G  PD    N ++    K G L  A  +  EM    P  N A++   I G      
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM----PERNLASWGTIIGGLVDAGN 204

Query: 204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK--ATSDV 261
             +A  LF  M  +G      T  +++ A    G         G+ L     K     D 
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA-----RAGQQLHCCVLKTGVVGDT 259

Query: 262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQ 321
             S  L+D Y K GD   A  +++ M +K      VA+N ++ G+ L+G    A   + +
Sbjct: 260 FVSCALIDMYSKCGDIEDARCVFDGMPEKTT----VAWNSMLAGYALHGYSEEALCLYYE 315

Query: 322 MLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGD 381
           M   G   D  T++ ++    +   L+ A   +  L +TG   D ++   ++      G 
Sbjct: 316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR 375

Query: 382 IVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNA 441
           +  AR     M  K+++     WN +I GYG  G  + A  + + M++ GV+ N  TF A
Sbjct: 376 MEDARNVFDRMPRKNLIS----WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLA 431

Query: 442 LILA 445
           ++ A
Sbjct: 432 VLSA 435

Length = 697

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

 Score = 77.6 bits (191), Expect = 6e-15
 Identities = 91/428 (21%), Positives = 160/428 (37%), Gaps = 80/428 (18%)

Query: 123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPD------------------------------ 152
           + +R LC  G++  AL L   M +     D                              
Sbjct: 56  SQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSS 115

Query: 153 -----VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKA 207
                V   N +++   + G+L  A +V  +M E     +  ++N  + GY +    D+A
Sbjct: 116 HPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEA 171

Query: 208 LHLFSTMANNGIRPNRVTHNIL---------------VHALCKKGLLGDAVKFL------ 246
           L L+  M   G+RP+  T   +               VHA   +      V  +      
Sbjct: 172 LCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITM 231

Query: 247 ----GEVLADD---DGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAY 299
               G+V++     D     D I+   ++  YF+NG+  + L L+  M + ++  D++  
Sbjct: 232 YVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTI 291

Query: 300 NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK 359
             +I+   L GD          ++K GF  DV   N+L+      G   EA   +  +  
Sbjct: 292 TSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET 351

Query: 360 TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSN 419
                D +S+  +I G   +G   KA E    M + +V P+      ++      GDL  
Sbjct: 352 K----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV 407

Query: 420 AFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITY 479
              + +L    G+ S V   NALI      + C    I  AL+++  +  +    D+I++
Sbjct: 408 GVKLHELAERKGLISYVVVANALI---EMYSKCK--CIDKALEVFHNIPEK----DVISW 458

Query: 480 TELIKGHC 487
           T +I G  
Sbjct: 459 TSIIAGLR 466

Length = 857

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

 Score = 64.0 bits (157), Expect = 3e-13
 Identities = 22/49 (44%), Positives = 34/49 (69%)

Query: 329 PDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC 377
           PDV+TYNTL++  CK+GK++EA   +  + K G+ P+  +Y  +I 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 = 62.4 bits (153), Expect = 8e-13
 Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 5/53 (9%)

Query: 435 NVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHC 487
           +V T+N LI        C  G +  AL+L++EM +RGI P++ TY+ LI G C
Sbjct: 2   DVVTYNTLI-----DGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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 = 68.7 bits (168), Expect = 4e-12
 Identities = 67/314 (21%), Positives = 127/314 (40%), Gaps = 18/314 (5%)

Query: 192 NAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK-KGLLGDAVKFLGEVL 250
           N+ +   C   +L++AL L  +M    +  +   +  L   LC+ K  + +  +      
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRA- 112

Query: 251 ADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG 310
                  +  V     ++  + + G+   A   W  +F K  + D+ ++NVL+ G+   G
Sbjct: 113 --LSSHPSLGVRLGNAMLSMFVRFGELVHA---WY-VFGKMPERDLFSWNVLVGGYAKAG 166

Query: 311 DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYK 370
               A   + +ML  G  PDV T+  +L        L      +  + + G   D     
Sbjct: 167 YFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVN 226

Query: 371 TIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF 430
            +I      GD+V AR     M  +  +     WN +I GY   G+      +   M   
Sbjct: 227 ALITMYVKCGDVVSARLVFDRMPRRDCIS----WNAMISGYFENGECLEGLELFFTMREL 282

Query: 431 GVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARG 490
            V  ++ T  ++I A        LG   L  +++  +++ G   D+     LI+ + + G
Sbjct: 283 SVDPDLMTITSVISA-----CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG 337

Query: 491 NMKEAEEVFAKIQT 504
           +  EAE+VF++++T
Sbjct: 338 SWGEAEKVFSRMET 351

Length = 857

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

 Score = 59.3 bits (145), Expect = 1e-11
 Identities = 19/48 (39%), Positives = 32/48 (66%)

Query: 260 DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC 307
           DV+T   L+D Y K G   +AL L+N+M ++ I+ ++  Y++LI+G C
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 64.5 bits (157), Expect = 8e-11
 Identities = 32/112 (28%), Positives = 56/112 (50%), Gaps = 4/112 (3%)

Query: 141 RRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCR 200
           R++ I+ GTV     ++ L+       + +KA  +  ++  ++  P  +T NA IT  C 
Sbjct: 676 RKQGIKLGTVS----YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

Query: 201 VNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLAD 252
            N+L KAL + S M   G+ PN +T++IL+ A  +K      +  L +   D
Sbjct: 732 GNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED 783

Length = 1060

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

 Score = 55.5 bits (135), Expect = 3e-10
 Identities = 20/50 (40%), Positives = 30/50 (60%)

Query: 151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCR 200
           PDV+T+N L++  CK G +E+A  +  EM +    PN  TY+  I G C+
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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 56.8 bits (137), Expect = 2e-08
 Identities = 53/228 (23%), Positives = 105/228 (46%), Gaps = 12/228 (5%)

Query: 148 GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKA 207
           G V D      L++   K GD+E A  V   M    P      +N+ + GY      ++A
Sbjct: 254 GVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----PEKTTVAWNSMLAGYALHGYSEEA 309

Query: 208 LHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTIL 267
           L L+  M ++G+  ++ T +I++    +  LL  A +    ++         D++ +T L
Sbjct: 310 LCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFP---LDIVANTAL 366

Query: 268 MDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF 327
           +D Y K G    A  +++ M +KN+    +++N LI G+  +G  + A   F +M+  G 
Sbjct: 367 VDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEGV 422

Query: 328 LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT-GVAPDQISYKTIIQ 374
            P+ +T+  +L+     G  ++    +  +S+   + P  + Y  +I+
Sbjct: 423 APNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIE 470

Length = 697

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

 Score = 49.3 bits (119), Expect = 2e-08
 Identities = 15/26 (57%), Positives = 22/26 (84%)

Query: 325 RGFLPDVITYNTLLNCLCKQGKLDEA 350
           +G  PDV+TYNTL++ LC+ G++DEA
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEA 26

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

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

 Score = 49.3 bits (119), Expect = 3e-08
 Identities = 13/32 (40%), Positives = 22/32 (68%)

Query: 217 NGIRPNRVTHNILVHALCKKGLLGDAVKFLGE 248
            G++P+ VT+N L+  LC+ G + +AV+ L E
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 53.7 bits (129), Expect = 2e-07
 Identities = 55/264 (20%), Positives = 104/264 (39%), Gaps = 33/264 (12%)

Query: 102 KTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVN 161
           + + +   ++ T E     +   +      G    AL +   M +KG  PD +  + LV+
Sbjct: 603 QMIHEYN-IKGTPEV----YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Query: 162 ELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRP 221
                GDL+KA  ++++  +        +Y++ +          KAL L+  + +  +RP
Sbjct: 658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP 717

Query: 222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQAL 281
              T N L+ ALC+   L  A++ L E+          + IT +IL+ +  +  D    L
Sbjct: 718 TVSTMNALITALCEGNQLPKALEVLSEM---KRLGLCPNTITYSILLVASERKDDADVGL 774

Query: 282 ALWNDMFQKNIQTDIVAYNVLINGFCL-----------------NGDI-------SSAFA 317
            L +   +  I+ ++V    +  G CL                 +G         S A  
Sbjct: 775 DLLSQAKEDGIKPNLVMCRCIT-GLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALM 833

Query: 318 YFCQMLKRGFLPDVITYNTLLNCL 341
            + + +  G LP +   + +L CL
Sbjct: 834 VYRETISAGTLPTMEVLSQVLGCL 857

Length = 1060

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

 Score = 53.3 bits (128), Expect = 2e-07
 Identities = 49/190 (25%), Positives = 74/190 (38%), Gaps = 27/190 (14%)

Query: 45  DDDNLPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNEGNPQAVFNALDLIL---------K 95
            D  + C L D+ S  GD      R  F       +G P+    A + +L         +
Sbjct: 257 GDTFVSCALIDMYSKCGDI--EDARCVF-------DGMPEKTTVAWNSMLAGYALHGYSE 307

Query: 96  ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLT 155
           E L     MRD+G     +  D      +IR       +  A      +I+ G   D++ 
Sbjct: 308 EALCLYYEMRDSG-----VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA 362

Query: 156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMA 215
           +  LV+   K G +E A +V     +  P  N  ++NA I GY       KA+ +F  M 
Sbjct: 363 NTALVDLYSKWGRMEDARNVF----DRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMI 418

Query: 216 NNGIRPNRVT 225
             G+ PN VT
Sbjct: 419 AEGVAPNHVT 428

Length = 697

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

 Score = 46.3 bits (111), Expect = 3e-07
 Identities = 16/35 (45%), Positives = 20/35 (57%)

Query: 297 VAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV 331
           V YN LI+G C  G +  A   F +M +RG  PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 45.5 bits (109), Expect = 9e-07
 Identities = 15/44 (34%), Positives = 29/44 (65%)

Query: 474 PDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRIL 517
           PD++TY  LI G+C +G ++EA ++F +++  G+  +   + IL
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSIL 44

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

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

 Score = 44.3 bits (106), Expect = 1e-06
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 470 RGITPDIITYTELIKGHCARGNMKEAEEVF 499
           +G+ PD++TY  LI G C  G + EA E+ 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELL 30

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 = 50.6 bits (121), Expect = 2e-06
 Identities = 53/247 (21%), Positives = 85/247 (34%), Gaps = 52/247 (21%)

Query: 300 NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGK-LDEASHFYGVLS 358
           N  +   C +G +  A      M +     D   Y  L   LC+  + ++E S       
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 359 KTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLS 418
            +  +        ++      G++V A      M E+ +      WNV++ GY + G   
Sbjct: 114 SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFS----WNVLVGGYAKAGYFD 169

Query: 419 NAFSIRDLMLSFGVSSNVFTF-----------------------------------NALI 443
            A  +   ML  GV  +V+TF                                   NALI
Sbjct: 170 EALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI 229

Query: 444 LAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQ 503
              T    C  G +  A  ++D M RR    D I++  +I G+   G   E  E+F    
Sbjct: 230 ---TMYVKC--GDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELF--FT 278

Query: 504 TLGLAID 510
              L++D
Sbjct: 279 MRELSVD 285

Length = 857

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

 Score = 42.7 bits (102), Expect = 6e-06
 Identities = 12/30 (40%), Positives = 16/30 (53%)

Query: 185 SPNCATYNAFITGYCRVNELDKALHLFSTM 214
            P+  TYN  I G CR   +D+A+ L   M
Sbjct: 4   KPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 42.3 bits (101), Expect = 7e-06
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQM 322
           K ++ D+V YN LI+G C  G +  A     +M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 42.4 bits (101), Expect = 7e-06
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 190 TYNAFITGYCRVNELDKALHLFSTMANNGIRPN 222
           TYN  I G C+   +++AL LF  M   GI P+
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 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 = 42.4 bits (101), Expect = 7e-06
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 297 VAYNVLINGFCLNGDISSAFAYFCQMLKRGF 327
           V YN LI+G+C  G +  A   F +M ++G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 14/50 (28%), Positives = 29/50 (58%)

Query: 364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR 413
           PD ++Y T+I G C  G + +A +    M ++ + P  + ++++IDG  +
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.1 bits (95), Expect = 5e-05
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 332 ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPD 365
           +TYNTL++ LCK G+++EA   +  + + G+ PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 10/33 (30%), Positives = 17/33 (51%)

Query: 189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRP 221
            TYNA +    +  + D AL +   M  +G++P
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|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 3e-04
 Identities = 14/30 (46%), Positives = 21/30 (70%)

Query: 190 TYNAFITGYCRVNELDKALHLFSTMANNGI 219
           TYN+ I+GYC+  +L++AL LF  M   G+
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|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 42.5 bits (98), Expect = 3e-04
 Identities = 48/267 (17%), Positives = 81/267 (30%), Gaps = 9/267 (3%)

Query: 276 DKFQALALWNDMFQKNIQTDIVAYNVLINGF-CLNGDISSAFAYFCQMLKRGFLPDVI-T 333
                           +  + +A          L G+++ A     + L+     D+   
Sbjct: 2   KDLLLALAILLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGL 61

Query: 334 YNTLLNCLCKQGKLDEA-SHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSM 392
              L   L K G+L+EA       L    +     +   +   L   G   +A E L   
Sbjct: 62  LLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKA 121

Query: 393 LEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASC 452
           L     P+     + +      GD   A  + +  L      N      L L        
Sbjct: 122 LALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGA---LLE 178

Query: 453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHI 512
            LG    AL+L ++ L+     D      L   +   G  +EA E + K   L L  D+ 
Sbjct: 179 ALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKA--LELDPDNA 236

Query: 513 P-FRILKKRYRRMKESDKARDIHQKWL 538
                L      +   ++A +  +K L
Sbjct: 237 EALYNLALLLLELGRYEEALEALEKAL 263

Length = 291

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

 Score = 37.5 bits (88), Expect = 4e-04
 Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 5/39 (12%)

Query: 436 VFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITP 474
           + T+NAL+LA         G   LAL + +EM   G+ P
Sbjct: 1   LETYNALLLA-----LAKAGDPDLALAVLEEMKASGLKP 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 = 37.5 bits (88), Expect = 4e-04
 Identities = 10/34 (29%), Positives = 13/34 (38%)

Query: 296 IVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLP 329
           +  YN L+      GD   A A   +M   G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 37.4 bits (88), Expect = 5e-04
 Identities = 10/30 (33%), Positives = 14/30 (46%)

Query: 403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGV 432
            +N +I GY + G L  A  +   M   GV
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 37.1 bits (87), Expect = 6e-04
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 5/40 (12%)

Query: 437 FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI 476
            T+N LI        C  G +  AL+L+ EM  RGI PD+
Sbjct: 1   VTYNTLI-----DGLCKAGRVEEALELFKEMKERGIEPDV 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.9 bits (87), Expect = 7e-04
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 147 KGTVPDVLTHNYLVNELCKIGDLEKADHVIREMS 180
           KG  PDV+T+N L++ LC+ G +++A  ++ EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 36.2 bits (85), Expect = 0.001
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 361 GVAPDQISYKTIIQGLCIHGDIVKAREFLLSM 392
           G+ PD ++Y T+I GLC  G + +A E L  M
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 35.9 bits (84), Expect = 0.001
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 367 ISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP 399
           ++Y T+I GLC  G + +A E    M E+ + P
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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

>gnl|CDD|220535 pfam10037, MRP-S27, Mitochondrial 28S ribosomal protein S27

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 39/148 (26%), Positives = 61/148 (41%), Gaps = 7/148 (4%)

Query: 164 CKIGDLEKADHVIREMSEMRPSPNCA-----TYNAFITGYCRVNELDKALHLFSTMANNG 218
             I   ++ D     + + R SPN       T +A+I    +    DKAL+        G
Sbjct: 72  NNISSRDEVDQAEYYLYKFRHSPNAWYLRDSTIHAWIRQCLKYQAPDKALYTLRNRIQYG 131

Query: 219 IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF 278
           I P+  T N+L+ +  KKG    A   + E++  +     S  I S  ++ SY K  D F
Sbjct: 132 IFPDDFTANLLLDSFLKKGNFKSAASVVTELMLQESFDNESTRILSLYVLYSYAKEFDPF 191

Query: 279 QALALWNDMFQKNIQTDIVAYNVLINGF 306
           + LA   D+     +   V+   L NG 
Sbjct: 192 EDLAEQPDLDWVEERKFGVSL--LRNGL 217

Members of this family of small ribosomal proteins possess one of three conserved blocks of sequence found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins, leaving open the possibility that MRP-S27 might be a functional partner of GTP-binding ribosomal proteins. Length = 417

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 9/35 (25%), Positives = 16/35 (45%)

Query: 402 HIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV 436
             +N +IDG  + G +  A  +   M   G+  +V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 477 ITYTELIKGHCARGNMKEAEEVFAKIQTLGL 507
           +TY  LI G+C  G ++EA E+F +++  G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 39.4 bits (90), Expect = 0.003
 Identities = 31/171 (18%), Positives = 55/171 (32%), Gaps = 6/171 (3%)

Query: 156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMA 215
              L   L  +G  E+A  ++ +   + P P+ A     +     + + ++AL L+    
Sbjct: 98  LLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKAL 157

Query: 216 NNGIRPNR--VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK 273
                 N        L   L   G   +A++ L + L  +      D      L   Y K
Sbjct: 158 ELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPD---DDAEALLNLGLLYLK 214

Query: 274 NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK 324
            G   +AL  +    + +       YN L       G    A     + L+
Sbjct: 215 LGKYEEALEYYEKALELDPDNAEALYN-LALLLLELGRYEEALEALEKALE 264

Length = 291

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	542
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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.97
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.88
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
PRK14574	822	hmsH outer membrane protein; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.82
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.74
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.71
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.71
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.7
KOG2076	895	consensus RNA polymerase III transcription factor	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.67
KOG2076	895	consensus RNA polymerase III transcription factor	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.66
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.65
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.64
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.6
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.59
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.58
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.57
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.56
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
PRK12370	553	invasion protein regulator; Provisional	99.47
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.45
PRK12370	553	invasion protein regulator; Provisional	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.44
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.44
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.42
KOG1129	478	consensus TPR repeat-containing protein [General f	99.41
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.4
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.38
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.37
KOG1129	478	consensus TPR repeat-containing protein [General f	99.37
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.35
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.35
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.35
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.35
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.35
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.34
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.32
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.32
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.32
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.32
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.3
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.29
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.29
PF13041	50	PPR_2: PPR repeat family	99.28
PF13041	50	PPR_2: PPR repeat family	99.26
PRK11189	296	lipoprotein NlpI; Provisional	99.23
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.22
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.21
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.2
PRK11189	296	lipoprotein NlpI; Provisional	99.2
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.11
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.1
PRK04841	903	transcriptional regulator MalT; Provisional	99.09
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.09
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.09
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.05
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.04
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.02
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.02
PRK04841	903	transcriptional regulator MalT; Provisional	99.01
KOG1125	579	consensus TPR repeat-containing protein [General f	98.98
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.96
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.95
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.92
KOG1125	579	consensus TPR repeat-containing protein [General f	98.9
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.89
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.88
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.87
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.86
PLN02789	320	farnesyltranstransferase	98.84
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.84
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.83
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.8
PLN02789	320	farnesyltranstransferase	98.79
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.77
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.75
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.75
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.73
PF12854	34	PPR_1: PPR repeat	98.71
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.69
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.67
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.67
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.67
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.66
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.65
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.65
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.64
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.63
PF12854	34	PPR_1: PPR repeat	98.62
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.62
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.61
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.53
PRK15359	144	type III secretion system chaperone protein SscB;	98.5
PRK15359	144	type III secretion system chaperone protein SscB;	98.48
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.48
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.41
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.39
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.37
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.37
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.35
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.27
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.21
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.14
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.12
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.11
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.07
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.06
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.01
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.0
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.98
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.97
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.91
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.9
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.85
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.85
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.83
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.81
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.79
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.78
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.77
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.74
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.73
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.7
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.68
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.68
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.67
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.67
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.66
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.65
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.64
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.62
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.6
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.6
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.59
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.58
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.58
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.58
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.56
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.56
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.55
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.54
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.54
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.54
PF12688	120	TPR_5: Tetratrico peptide repeat	97.52
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.52
KOG0553	304	consensus TPR repeat-containing protein [General f	97.5
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.49
KOG0553	304	consensus TPR repeat-containing protein [General f	97.49
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.48
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.48
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.43
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.42
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.42
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.39
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.38
PF12688	120	TPR_5: Tetratrico peptide repeat	97.36
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.36
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.32
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.31
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.28
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.26
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.25
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.24
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.24
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.21
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.2
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.19
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.19
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.16
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.14
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.1
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.09
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.06
PRK10803	263	tol-pal system protein YbgF; Provisional	97.06
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.05
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.03
PRK10803	263	tol-pal system protein YbgF; Provisional	97.01
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.96
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.9
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.86
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.85
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.75
PF13371	73	TPR_9: Tetratricopeptide repeat	96.62
PRK15331	165	chaperone protein SicA; Provisional	96.6
PF13371	73	TPR_9: Tetratricopeptide repeat	96.6
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.44
PRK15331	165	chaperone protein SicA; Provisional	96.27
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.17
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.05
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.05
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.04
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.01
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.99
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.95
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.93
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.92
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.92
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.87
PF13512	142	TPR_18: Tetratricopeptide repeat	95.84
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.83
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.83
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.79
KOG4555	175	consensus TPR repeat-containing protein [Function	95.77
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.73
PRK11906	458	transcriptional regulator; Provisional	95.72
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.67
KOG4555	175	consensus TPR repeat-containing protein [Function	95.62
PF13512	142	TPR_18: Tetratricopeptide repeat	95.58
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.51
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.47
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.35
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.29
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.28
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.26
KOG1585	308	consensus Protein required for fusion of vesicles	95.22
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.21
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.12
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.99
KOG3941	406	consensus Intermediate in Toll signal transduction	94.88
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.88
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.87
PRK11906	458	transcriptional regulator; Provisional	94.86
PF13428	44	TPR_14: Tetratricopeptide repeat	94.76
PF13428	44	TPR_14: Tetratricopeptide repeat	94.66
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.65
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.55
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.49
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.46
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.38
KOG3941	406	consensus Intermediate in Toll signal transduction	94.38
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.32
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.29
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	94.24
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.18
KOG1585	308	consensus Protein required for fusion of vesicles	94.08
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.06
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.97
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	93.96
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.85
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.78
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.76
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.69
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.51
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.46
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.25
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.0
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.86
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.69
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	92.61
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.58
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.57
PF13431	34	TPR_17: Tetratricopeptide repeat	92.49
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.31
KOG1258	577	consensus mRNA processing protein [RNA processing	92.28
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.99
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.97
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.95
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.9
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.74
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.72
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	91.25
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.21
PF13431	34	TPR_17: Tetratricopeptide repeat	91.17
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.17
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.02
KOG1258	577	consensus mRNA processing protein [RNA processing	90.75
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.53
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	90.43
KOG4234	271	consensus TPR repeat-containing protein [General f	90.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.05
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.94
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.73
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	89.61
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.38
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.07
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.01
PRK09687	280	putative lyase; Provisional	88.88
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.55
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.48
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.7
PRK09687	280	putative lyase; Provisional	87.57
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	87.54
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.43
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	87.42
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	87.28
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.23
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.12
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.43
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	86.18
KOG4234	271	consensus TPR repeat-containing protein [General f	85.42
COG3947	361	Response regulator containing CheY-like receiver a	84.48
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.44
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.41
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.98
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.94
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.39
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.13
KOG1586	288	consensus Protein required for fusion of vesicles	82.49
COG4455	273	ImpE Protein of avirulence locus involved in tempe	80.88
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.87
COG3947	361	Response regulator containing CheY-like receiver a	80.82
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	80.79
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	80.78
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	80.02

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5e-65  Score=532.85  Aligned_cols=478  Identities=18%  Similarity=0.231  Sum_probs=428.6

Q ss_pred             CccccccccccccchhhhhhhhhhccccCcCC-CCchhHHHHHHHHHH--hhHHHHHHHHhhCCCCCCCCCChhhHHHHH
Q 009143           49 LPCTLNDIMSYVGDQCRSKTRHWFSNKDSDNE-GNPQAVFNALDLILK--ENLDRLKTMRDTGPVRCTLETDYRRHVAVI  125 (542)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  125 (542)
                      .|....-+.++...+...++.+.|+.+...+. .....+++.+...+.  +..+.+..+++.++     .||..+|+.++
T Consensus       370 ~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~-----~pd~~Tyn~LL  444 (1060)
T PLN03218        370 SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR-----NPTLSTFNMLM  444 (1060)
T ss_pred             chHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC-----CCCHHHHHHHH
Confidence            44444445555555566667777773333322 222334444444432  34566667777765     39999999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChh
Q 009143          126 RDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELD  205 (542)
Q Consensus       126 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  205 (542)
                      .+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+++
T Consensus       445 ~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        445 SVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWN  285 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  285 (542)
                      +|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|...+. ...||..+|+.++.+|++.|++++|.++|+
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~-gi~PD~vTynaLI~ay~k~G~ldeA~elf~  603 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETH-PIDPDHITVGALMKACANAGQVDRAKEVYQ  603 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcC-CCCCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999987432 233899999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 009143          286 DMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPD  365 (542)
Q Consensus       286 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  365 (542)
                      +|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.|+
T Consensus       604 ~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd  683 (1060)
T PLN03218        604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLG  683 (1060)
T ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009143          366 QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILA  445 (542)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~  445 (542)
                      ..+|+.+|.+|++.|++++|.++|++|.+.++.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+
T Consensus       684 ~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a  763 (1060)
T PLN03218        684 TVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA  763 (1060)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c-------------------CCHHHHHHHHHHH
Q 009143          446 ETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCA----R-------------------GNMKEAEEVFAKI  502 (542)
Q Consensus       446 ~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~-------------------g~~~~A~~~~~~m  502 (542)
                           +++.|++++|.+++++|.+.|+.||..+|++++..|.+    .                   +..++|..+|++|
T Consensus       764 -----~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM  838 (1060)
T PLN03218        764 -----SERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRET  838 (1060)
T ss_pred             -----HHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHH
Confidence                 77889999999999999999999999999999876432    1                   2246799999999


Q ss_pred             hHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          503 QTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKW  537 (542)
Q Consensus       503 ~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  537 (542)
                      .+.|+.||..+|+.++.++.+.+..+.+.++++.|
T Consensus       839 ~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m  873 (1060)
T PLN03218        839 ISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENL  873 (1060)
T ss_pred             HHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHh
Confidence            99999999999999998888888888888888776

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.5e-63  Score=516.98  Aligned_cols=446  Identities=19%  Similarity=0.278  Sum_probs=416.4

Q ss_pred             chhHHHHHHHHHH-hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009143           83 PQAVFNALDLILK-ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVN  161 (542)
Q Consensus        83 ~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  161 (542)
                      ...+...+..+.+ +.++.+.++++.++...-++++..+++.++..|.+.|.+++|..+|+.|..    ||..+|+.++.
T Consensus       370 ~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~  445 (1060)
T PLN03218        370 SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMS  445 (1060)
T ss_pred             chHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHH
Confidence            4456666766664 355667777777654333567888899999999999999999999999874    89999999999


Q ss_pred             HHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhH
Q 009143          162 ELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGD  241 (542)
Q Consensus       162 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  241 (542)
                      +|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHhCCCHHHHHHHH
Q 009143          242 AVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ--KNIQTDIVAYNVLINGFCLNGDISSAFAYF  319 (542)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  319 (542)
                      |.++|++|.+.+. .  ||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|++++.+|++.|++++|.++|
T Consensus       526 Al~lf~~M~~~Gv-~--PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        526 AFGAYGIMRSKNV-K--PDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHcCC-C--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999998876 6  9999999999999999999999999999986  578999999999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 009143          320 CQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP  399 (542)
Q Consensus       320 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  399 (542)
                      ++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHH
Q 009143          400 EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITY  479 (542)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  479 (542)
                      +..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+     |++.|++++|.++|++|.+.|+.||..||
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~g-----y~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty  757 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA-----LCEGNQLPKALEVLSEMKRLGLCPNTITY  757 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-----HHHCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            9999999999999999999999999999999999999999999998     78899999999999999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHh-----------------------cCChhHHHHHHHH
Q 009143          480 TELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRR-----------------------MKESDKARDIHQK  536 (542)
Q Consensus       480 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~-----------------------~g~~~~A~~~~~~  536 (542)
                      +.++.+|++.|++++|.+++++|.+.|+.||..+|++++..|.+                       .++.++|..+|++
T Consensus       758 ~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~e  837 (1060)
T PLN03218        758 SILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRE  837 (1060)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHH
Confidence            99999999999999999999999999999999999999876542                       1345779999999


Q ss_pred             Hhhc
Q 009143          537 WLLR  540 (542)
Q Consensus       537 ~l~~  540 (542)
                      |++.
T Consensus       838 M~~~  841 (1060)
T PLN03218        838 TISA  841 (1060)
T ss_pred             HHHC
Confidence            9764

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

Probab=100.00  E-value=5.8e-60  Score=492.55  Aligned_cols=433  Identities=20%  Similarity=0.263  Sum_probs=390.4

Q ss_pred             hHHHHHHHHHH-hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009143           85 AVFNALDLILK-ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNEL  163 (542)
Q Consensus        85 ~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  163 (542)
                      .+...+..+.+ +..+.+..+++.+....++.||..+|+.++.++++.++++.|.+++..|.+.|+.||..+|+.++..|
T Consensus        89 ~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y  168 (697)
T PLN03081         89 SLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMH  168 (697)
T ss_pred             eHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            44455555543 34455555555544333567999999999999999999999999999999999999999999999999


Q ss_pred             HHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHH
Q 009143          164 CKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV  243 (542)
Q Consensus       164 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~  243 (542)
                      ++.|++++|.++|++|.    .||..+||.+|.+|++.|++++|+++|++|.+.|+.|+..||..++.++++.|..+.+.
T Consensus       169 ~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        169 VKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             hcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999984    58999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      +++..+.+.+. .  ++..+|+.|+++|++.|++++|.++|++|.    ++|..+|+.|+.+|++.|++++|+++|++|.
T Consensus       245 ~l~~~~~~~g~-~--~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~  317 (697)
T PLN03081        245 QLHCCVLKTGV-V--GDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMR  317 (697)
T ss_pred             HHHHHHHHhCC-C--ccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999998876 5  889999999999999999999999999996    5789999999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 009143          324 KRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHI  403 (542)
Q Consensus       324 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  403 (542)
                      +.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++++|++.|++++|.++|++|.+    ||..+
T Consensus       318 ~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t  393 (697)
T PLN03081        318 DSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLIS  393 (697)
T ss_pred             HcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999965    68899


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh-CCCCCCHHHHHHH
Q 009143          404 WNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR-RGITPDIITYTEL  482 (542)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~l  482 (542)
                      ||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+     +++.|.+++|.++|+.|.+ .|+.|+..+|+.+
T Consensus       394 ~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a-----~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~l  468 (697)
T PLN03081        394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA-----CRYSGLSEQGWEIFQSMSENHRIKPRAMHYACM  468 (697)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-----HhcCCcHHHHHHHHHHHHHhcCCCCCccchHhH
Confidence            999999999999999999999999999999999999999998     6788999999999999986 6999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          483 IKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       483 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      +++|++.|++++|.+++++|   ++.|+..+|++|+.+|...|+.+.|.++++++++.
T Consensus       469 i~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~  523 (697)
T PLN03081        469 IELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM  523 (697)
T ss_pred             HHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC
Confidence            99999999999999998766   46788888888888888888888888888877543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.7e-60  Score=502.89  Aligned_cols=420  Identities=23%  Similarity=0.288  Sum_probs=364.4

Q ss_pred             hHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh----------------------
Q 009143           97 NLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVL----------------------  154 (542)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----------------------  154 (542)
                      ..+.+..+++.++     +||+.+||++|.+|++.|++++|+++|++|...|+.||..                      
T Consensus       136 ~~~~A~~~f~~m~-----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~  210 (857)
T PLN03077        136 ELVHAWYVFGKMP-----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVH  210 (857)
T ss_pred             ChHHHHHHHhcCC-----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHH
Confidence            4555556666654     4666777777777777777777777777776666655544                      


Q ss_pred             -------------hHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCC
Q 009143          155 -------------THNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRP  221 (542)
Q Consensus       155 -------------~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  221 (542)
                                   +++.++.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.|
T Consensus       211 ~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~P  286 (857)
T PLN03077        211 AHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDP  286 (857)
T ss_pred             HHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence                         45777888889999999999999884    5788999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNV  301 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  301 (542)
                      |..||+.++.+|++.|+.+.|.+++..+.+.+. .  +|..+|+.|+.+|++.|++++|.++|++|.    .||..+|+.
T Consensus       287 d~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~-~--~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~  359 (857)
T PLN03077        287 DLMTITSVISACELLGDERLGREMHGYVVKTGF-A--VDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTA  359 (857)
T ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCC-c--cchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHH
Confidence            999999999999999999999999999999886 6  899999999999999999999999999997    578999999


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGD  381 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  381 (542)
                      +|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.+.+.|+.|+..+|+.++++|++.|+
T Consensus       360 li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~  439 (857)
T PLN03077        360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC  439 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhh--------------
Q 009143          382 IVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAET--------------  447 (542)
Q Consensus       382 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~--------------  447 (542)
                      +++|.++|++|.+    +|..+|+.+|.+|++.|+.++|..+|++|.. ++.||..||+.++.+|+              
T Consensus       440 ~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~  514 (857)
T PLN03077        440 IDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAH  514 (857)
T ss_pred             HHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHH
Confidence            9999999999875    5788899999999999999999999999975 47788777777776554              


Q ss_pred             ----------------------------------------------cccccccCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009143          448 ----------------------------------------------RGASCNLGHIHLALQLYDEMLRRGITPDIITYTE  481 (542)
Q Consensus       448 ----------------------------------------------~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  481 (542)
                                                                    +.+|++.|+.++|.++|++|.+.|+.||..||+.
T Consensus       515 ~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~  594 (857)
T PLN03077        515 VLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFIS  594 (857)
T ss_pred             HHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHH
Confidence                                                          1235667788888888888888888888888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHh-HcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          482 LIKGHCARGNMKEAEEVFAKIQ-TLGLAIDHIPFRILKKRYRRMKESDKARDIHQKW  537 (542)
Q Consensus       482 li~~~~~~g~~~~A~~~~~~m~-~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  537 (542)
                      ++.+|++.|++++|.++|++|. +.|+.|+..+|+.++++|.+.|++++|.+++++|
T Consensus       595 ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        595 LLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             HHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            8888888888888888888888 5788888888888888888888888888888887

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

Probab=100.00  E-value=1.2e-58  Score=482.66  Aligned_cols=453  Identities=15%  Similarity=0.222  Sum_probs=407.6

Q ss_pred             hhhhhhhhhhccccC-cCCCCchhHHHH-HHHHHH-hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHH
Q 009143           63 QCRSKTRHWFSNKDS-DNEGNPQAVFNA-LDLILK-ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALW  139 (542)
Q Consensus        63 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~-l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  139 (542)
                      +...++...|..... .....+...++. +..+.+ +..+....++..+. +.|+.||+.+|+.++..|++.|+++.|.+
T Consensus       101 g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~-~~g~~~~~~~~n~Li~~y~k~g~~~~A~~  179 (697)
T PLN03081        101 GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVE-SSGFEPDQYMMNRVLLMHVKCGMLIDARR  179 (697)
T ss_pred             CCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH-HhCCCcchHHHHHHHHHHhcCCCHHHHHH
Confidence            344455555552222 212223444554 444442 23444455554442 44889999999999999999999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCC
Q 009143          140 LRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGI  219 (542)
Q Consensus       140 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  219 (542)
                      +|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.++.+|++.|..+.+.+++..+.+.|+
T Consensus       180 lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~  255 (697)
T PLN03081        180 LFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGV  255 (697)
T ss_pred             HHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCC
Confidence            9999964    799999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 009143          220 RPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAY  299 (542)
Q Consensus       220 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  299 (542)
                      .||..+|+.|+++|++.|++++|.++|++|..       +++.+||.++.+|++.|+.++|.++|++|.+.|+.||..||
T Consensus       256 ~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-------~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~  328 (697)
T PLN03081        256 VGDTFVSCALIDMYSKCGDIEDARCVFDGMPE-------KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF  328 (697)
T ss_pred             CccceeHHHHHHHHHHCCCHHHHHHHHHhCCC-------CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            99999999999999999999999999999853       78899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIH  379 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  379 (542)
                      +.++.+|++.|++++|.+++..|.+.|+.||..+|+.|+.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.
T Consensus       329 ~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999999999999999999999864    7899999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCCCHHHHHHHHHHhhcccccccCChH
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS-FGVSSNVFTFNALILAETRGASCNLGHIH  458 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~g~~~  458 (542)
                      |+.++|.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|+.++.+     +++.|+++
T Consensus       405 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~-----l~r~G~~~  479 (697)
T PLN03081        405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL-----LGREGLLD  479 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHH-----HHhcCCHH
Confidence            99999999999999999999999999999999999999999999999986 6999999999999998     88999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHh
Q 009143          459 LALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       459 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      +|.+++++|   ++.|+..+|++|+.+|...|+++.|..+++++.+.++ .+..+|..+++.|.+.|++++|.+++++|.
T Consensus       480 eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p-~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~  555 (697)
T PLN03081        480 EAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGP-EKLNNYVVLLNLYNSSGRQAEAAKVVETLK  555 (697)
T ss_pred             HHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCC-CCCcchHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            999999876   5789999999999999999999999999999976532 257799999999999999999999999997


Q ss_pred             hc
Q 009143          539 LR  540 (542)
Q Consensus       539 ~~  540 (542)
                      +.
T Consensus       556 ~~  557 (697)
T PLN03081        556 RK  557 (697)
T ss_pred             Hc
Confidence            65

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.7e-58  Score=487.53  Aligned_cols=417  Identities=21%  Similarity=0.271  Sum_probs=374.9

Q ss_pred             HHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHH
Q 009143           98 LDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIR  177 (542)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  177 (542)
                      .+.+..++..+. ..|+.||..||+.++.++++.|+++.|.+++..|.+.|+.||..+|+.|+.+|++.|++++|.++|+
T Consensus       269 ~~eAl~lf~~M~-~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~  347 (857)
T PLN03077        269 CLEGLELFFTMR-ELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFS  347 (857)
T ss_pred             HHHHHHHHHHHH-HcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHh
Confidence            344444444432 3367788888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 009143          178 EMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKA  257 (542)
Q Consensus       178 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  257 (542)
                      +|.    .||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|. . 
T Consensus       348 ~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~-~-  421 (857)
T PLN03077        348 RME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL-I-  421 (857)
T ss_pred             hCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCC-C-
Confidence            884    4788899999999999999999999999999999999999999999999999999999999999998876 5 


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009143          258 TSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTL  337 (542)
Q Consensus       258 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l  337 (542)
                       ++..+|+.|+++|++.|++++|.++|++|.    .+|..+|+.+|.+|++.|+.++|+++|++|.. ++.||..||+.+
T Consensus       422 -~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~l  495 (857)
T PLN03077        422 -SYVVVANALIEMYSKCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAA  495 (857)
T ss_pred             -cchHHHHHHHHHHHHcCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHH
Confidence             888999999999999999999999999987    46888999999999999999999999999986 589999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 009143          338 LNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDL  417 (542)
Q Consensus       338 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  417 (542)
                      +.+|++.|.++.+.+++..+.+.|+.++..+++.++++|++.|++++|.++|+.+     .||..+||++|.+|++.|+.
T Consensus       496 L~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~  570 (857)
T PLN03077        496 LSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKG  570 (857)
T ss_pred             HHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCH
Confidence            9999999999999999999999999999999999999999999999999999987     47999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 009143          418 SNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEML-RRGITPDIITYTELIKGHCARGNMKEAE  496 (542)
Q Consensus       418 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~-~~g~~p~~~~~~~li~~~~~~g~~~~A~  496 (542)
                      ++|.++|++|.+.|+.||..||+.++.+     +++.|.+++|.++|++|. +.|+.|+..+|++++++|++.|++++|.
T Consensus       571 ~~A~~lf~~M~~~g~~Pd~~T~~~ll~a-----~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~  645 (857)
T PLN03077        571 SMAVELFNRMVESGVNPDEVTFISLLCA-----CSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAY  645 (857)
T ss_pred             HHHHHHHHHHHHcCCCCCcccHHHHHHH-----HhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999999999999999999998     778899999999999999 6899999999999999999999999999


Q ss_pred             HHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          497 EVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       497 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      +++++|.   ++||..+|++|+.+|...|+.+.++...+++++.
T Consensus       646 ~~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l  686 (857)
T PLN03077        646 NFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFEL  686 (857)
T ss_pred             HHHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhh
Confidence            9999984   6799999999999999999999888888887654

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

Probab=100.00  E-value=2.1e-27  Score=259.38  Aligned_cols=402  Identities=16%  Similarity=0.091  Sum_probs=310.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      +...+..+...+...|++++|...++++.+.. +.+..++..+...+.+.|+.++|...++++.+..+ .+...+..++.
T Consensus       498 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~  575 (899)
T TIGR02917       498 FFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQ  575 (899)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHH
Confidence            44456666666677777777777777776653 33556666777777777777777777777766554 35566667777


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      .+.+.|++++|..+++.+.+. .+.+..+|..+...+...|++++|...++++.+..+    .+...+..+...+.+.|+
T Consensus       576 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~  650 (899)
T TIGR02917       576 YYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQP----DSALALLLLADAYAVMKN  650 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHcCC
Confidence            777777888888877777664 344667777788888888888888888888877665    566777788888888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGV  356 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  356 (542)
                      +++|...++++.+.. +.+..++..++..+...|++++|.++++.+.+.+ +++...+..+...+...|++++|...+..
T Consensus       651 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  728 (899)
T TIGR02917       651 YAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRK  728 (899)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888888887664 5567778888888888888888888888887764 45667777788888888888888888888


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 009143          357 LSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV  436 (542)
Q Consensus       357 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  436 (542)
                      +...+  |+..++..+...+.+.|++++|.+.+.++.+..+. +...+..+...|...|++++|...|+++.+.. +++.
T Consensus       729 ~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~  804 (899)
T TIGR02917       729 ALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNA  804 (899)
T ss_pred             HHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCH
Confidence            88754  44567777888888889999999988888887654 78888888899999999999999999988753 3455


Q ss_pred             HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHH
Q 009143          437 FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRI  516 (542)
Q Consensus       437 ~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  516 (542)
                      ..++.+...     +...|+ .+|+.+++++.+.. +-+..++..+...+...|++++|..+++++.+.+.. +..++..
T Consensus       805 ~~~~~l~~~-----~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~  876 (899)
T TIGR02917       805 VVLNNLAWL-----YLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYH  876 (899)
T ss_pred             HHHHHHHHH-----HHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHH
Confidence            666666655     566778 77999999988753 234567778889999999999999999999997654 8899999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhh
Q 009143          517 LKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       517 l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      +..++.+.|+.++|.+++++|++
T Consensus       877 l~~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       877 LALALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHhC
Confidence            99999999999999999999874

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=99.97  E-value=2.9e-26  Score=250.34  Aligned_cols=405  Identities=13%  Similarity=0.053  Sum_probs=289.4

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      +++.+|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.++++.+..+ .+..++..+.
T Consensus       463 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~  540 (899)
T TIGR02917       463 DNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP-KNLRAILALA  540 (899)
T ss_pred             CCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHH
Confidence            455567777777777777777777777776643 23455566667777777777777777777766554 3566677777


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..+.+.|++++|..+++++...+ +.+...+..++..+.+.|++++|.++++++.+..+    .+...|..++..+...|
T Consensus       541 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~  615 (899)
T TIGR02917       541 GLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAP----DSPEAWLMLGRAQLAAG  615 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHcC
Confidence            77777777777777777776553 33556666677777777777777777777776555    56677777777777777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          276 DKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYG  355 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  355 (542)
                      ++++|...|+.+.+.. +.+...+..+...+...|++++|...|+++.+.. +.+..++..++..+...|++++|..+++
T Consensus       616 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  693 (899)
T TIGR02917       616 DLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAK  693 (899)
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7777777777777654 4566677777777777777777777777777653 3346677777777777778888887777


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          356 VLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN  435 (542)
Q Consensus       356 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (542)
                      .+.+.+ +.+...+..+...+...|++++|.+.++++...++  +..++..++.++.+.|++++|.+.++++.+.. +.+
T Consensus       694 ~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~  769 (899)
T TIGR02917       694 SLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAP--SSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PND  769 (899)
T ss_pred             HHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCC--CchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCC
Confidence            777654 34566677777777778888888888888777653  33666677777888888888888888777642 234


Q ss_pred             HHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHH
Q 009143          436 VFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFR  515 (542)
Q Consensus       436 ~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~  515 (542)
                      ...+..+...     +...|+.++|...|+++.+.. +++...+..++..+...|+ .+|..+++++.+... .++.++.
T Consensus       770 ~~~~~~la~~-----~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~-~~~~~~~  841 (899)
T TIGR02917       770 AVLRTALAEL-----YLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAP-NIPAILD  841 (899)
T ss_pred             HHHHHHHHHH-----HHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCC-CCcHHHH
Confidence            4455544444     566788888888888888754 3466778888888888888 778888888877532 3566677


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          516 ILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       516 ~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      .+...+...|++++|.++++++++.+
T Consensus       842 ~~~~~~~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       842 TLGWLLVEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            78888888899999999999888754

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=99.92  E-value=1.9e-21  Score=190.71  Aligned_cols=303  Identities=15%  Similarity=0.078  Sum_probs=149.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC---HHhHHHHHHHHHHc
Q 009143          125 IRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN---CATYNAFITGYCRV  201 (542)
Q Consensus       125 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~  201 (542)
                      ...+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+......++   ...+..++..|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            334455566666666666666652 22444566666666666666666666666655322111   13455556666666


Q ss_pred             CChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCC-cHHHHHHHHHHHHhcCCHHHH
Q 009143          202 NELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATS-DVITSTILMDSYFKNGDKFQA  280 (542)
Q Consensus       202 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a  280 (542)
                      |++++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.++..... ....+..++..+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            66666666666665431 2344555556666666666666666666655544311000 011233444455555555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          281 LALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      .+.++++.+.. +.+...+..+...+.+.|++++|.+.|+++.+.+......++..++.+|...|++++|...++.+.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55555555432 22344444455555555555555555555554321111233444445555555555555555554443


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCC
Q 009143          361 GVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR---CGDLSNAFSIRDLMLSFGVSS  434 (542)
Q Consensus       361 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p  434 (542)
                        .|+...+..+...+.+.|++++|..+++++.+.  .|+...++.++..+..   .|+.+++..++++|.+.++.|
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~  351 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKR  351 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhC
Confidence              233333344444445555555555555544443  2344444444444332   234444555555444433333

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

Probab=99.92  E-value=1.6e-19  Score=186.44  Aligned_cols=401  Identities=13%  Similarity=0.029  Sum_probs=285.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      .+......+.+.|++++|+..|++.++.  .|+...|..+..+|.+.|++++|++.++..++..| .+...|..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            4567788899999999999999999875  57888899999999999999999999999998765 36778899999999


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCC---------------------
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKAT---------------------  258 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---------------------  258 (542)
                      ..|++++|+..|......+-. +......++.....    ..+.......++..+...+                     
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  280 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGL  280 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhh
Confidence            999999999888766543211 11111111111111    1111111111111110000                     


Q ss_pred             -------C-cHHHHHHHHHHH---HhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          259 -------S-DVITSTILMDSY---FKNGDKFQALALWNDMFQKN--IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       259 -------~-~~~~~~~l~~~~---~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                             + ....+..+...+   ...+++++|.+.|+...+.+  .+.....|..+...+...|++++|+..|++..+.
T Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l  360 (615)
T TIGR00990       281 EDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL  360 (615)
T ss_pred             hcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                   0 000111111111   22367889999999988764  2335567888888888999999999999998876


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 009143          326 GFLPD-VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIW  404 (542)
Q Consensus       326 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  404 (542)
                        .|+ ...|..+...+...|++++|...++...+.. +.+..++..+...+...|++++|...|++.++..+. +...+
T Consensus       361 --~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~  436 (615)
T TIGR00990       361 --DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSH  436 (615)
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHH
Confidence              344 5678888888899999999999999888764 345778888888899999999999999999887654 67778


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHH------
Q 009143          405 NVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN-VFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDII------  477 (542)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~------  477 (542)
                      ..+...+.+.|++++|+..|++..+.  .|+ ...++.+-..     +...|++++|++.|++........+..      
T Consensus       437 ~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~-----~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~  509 (615)
T TIGR00990       437 IQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGEL-----LLDQNKFDEAIEKFDTAIELEKETKPMYMNVLP  509 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHH-----HHHccCHHHHHHHHHHHHhcCCccccccccHHH
Confidence            88889999999999999999998874  343 3444444443     667899999999999988753211111      


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      .++..+..+...|++++|.+++++..+... .+...+..+...+...|++++|.++|+++++.
T Consensus       510 l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p-~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       510 LINKALALFQWKQDFIEAENLCEKALIIDP-ECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            112222233346899999999999887643 34556888899999999999999999988654

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

Probab=99.92  E-value=1.4e-21  Score=182.98  Aligned_cols=386  Identities=18%  Similarity=0.131  Sum_probs=291.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhH-HHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATY-NAFI  195 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~li  195 (542)
                      -..+|..+.+.+-..|++++|+++++.+++.. +.....|..+..++...|+.+.|.+.|.+.++.+  |+.... ..+.
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lg  191 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLG  191 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchh
Confidence            34578888888888888888888888888863 2256788888888888888888888888887754  444433 3344


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      ..+-..|+..+|...|.+..+.  .|. ...|..|...+..+|+...|++.|++.++.++    .-..+|..|...|...
T Consensus       192 nLlka~Grl~ea~~cYlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP----~f~dAYiNLGnV~ke~  265 (966)
T KOG4626|consen  192 NLLKAEGRLEEAKACYLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDP----NFLDAYINLGNVYKEA  265 (966)
T ss_pred             HHHHhhcccchhHHHHHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCC----cchHHHhhHHHHHHHH
Confidence            4445578888888888887764  343 46778888888888888888888888888877    6677888888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHH
Q 009143          275 GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD-VITYNTLLNCLCKQGKLDEASHF  353 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~  353 (542)
                      +.++.|...+.+..... +.....+..+...|...|..+-|++.|++..+.  .|+ ...|+.|..++-..|++.+|.+.
T Consensus       266 ~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~c  342 (966)
T KOG4626|consen  266 RIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDC  342 (966)
T ss_pred             hcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHH
Confidence            88888888888887664 455677888888888888888888888888876  444 57788888888888888888888


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 009143          354 YGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVS  433 (542)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  433 (542)
                      +....... +......+.|...|...|.+++|..+|....+-.+. -....+.|...|-++|++++|+..|++.++  +.
T Consensus       343 YnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~  418 (966)
T KOG4626|consen  343 YNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALR--IK  418 (966)
T ss_pred             HHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cC
Confidence            88887753 234567788888888888888888888888875432 345678888888888888888888888887  56


Q ss_pred             CCH-HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCC-
Q 009143          434 SNV-FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAID-  510 (542)
Q Consensus       434 p~~-~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~-  510 (542)
                      |+. ..|+.+-..     |-..|+++.|.+.+.+.+..  .|.- ..++.|...|-..|+..+|+.-+++..+.  +|| 
T Consensus       419 P~fAda~~NmGnt-----~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLkl--kPDf  489 (966)
T KOG4626|consen  419 PTFADALSNMGNT-----YKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKL--KPDF  489 (966)
T ss_pred             chHHHHHHhcchH-----HHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc--CCCC
Confidence            764 445555443     66778888888888888874  4543 67788888888888888888888888775  344 


Q ss_pred             hhHHHHHHHHHHhcCCh
Q 009143          511 HIPFRILKKRYRRMKES  527 (542)
Q Consensus       511 ~~~~~~l~~~~~~~g~~  527 (542)
                      +..|-.++.++.--.++
T Consensus       490 pdA~cNllh~lq~vcdw  506 (966)
T KOG4626|consen  490 PDAYCNLLHCLQIVCDW  506 (966)
T ss_pred             chhhhHHHHHHHHHhcc
Confidence            34455555554433333

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.91  E-value=7.4e-20  Score=201.00  Aligned_cols=395  Identities=14%  Similarity=0.076  Sum_probs=267.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC-HHhHH-----------
Q 009143          125 IRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN-CATYN-----------  192 (542)
Q Consensus       125 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~-----------  192 (542)
                      ...+...|++++|+..|++.++.. +.+..++..+...|.+.|++++|+..|++..+..+... ...|.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            456678899999999999998863 33678888999999999999999999999988665432 11221           


Q ss_pred             -HHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          193 -AFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       193 -~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                       .....+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|++.|+++++..+    .+..++..+...+
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p----~~~~a~~~L~~l~  429 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP----GNTNAVRGLANLY  429 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHH
Confidence             22446678899999999999998863 33566777888999999999999999999998776    4455554444443


Q ss_pred             ------------------------------------------HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          272 ------------------------------------------FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       272 ------------------------------------------~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                                                                ...|++++|.+.+++..+.. +.+...+..+...|.+.
T Consensus       430 ~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        430 RQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQA  508 (1157)
T ss_pred             HhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence                                                      33455555555555555443 23344444555555555


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh---------hHHHHHHHHHhcC
Q 009143          310 GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQI---------SYKTIIQGLCIHG  380 (542)
Q Consensus       310 ~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~g  380 (542)
                      |++++|...++++.+.. +.+...+..+...+...++.++|...++.+......++..         .+..+...+...|
T Consensus       509 G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        509 GQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             CCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            55555555555554431 1122333333333444555555555554433221111110         1122344556667


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHH
Q 009143          381 DIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLA  460 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A  460 (542)
                      +.++|.++++.     .+.+...+..+...+.+.|++++|+..|++..+.. +.+...+..+...     +...|++++|
T Consensus       588 ~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~-----~~~~g~~~eA  656 (1157)
T PRK11447        588 KEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEV-----DIAQGDLAAA  656 (1157)
T ss_pred             CHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH-----HHHCCCHHHH
Confidence            77777777661     23466677888999999999999999999999852 2244556666655     6778999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCC--C---ChhHHHHHHHHHHhcCChhHHHHHHH
Q 009143          461 LQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLA--I---DHIPFRILKKRYRRMKESDKARDIHQ  535 (542)
Q Consensus       461 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--~---~~~~~~~l~~~~~~~g~~~~A~~~~~  535 (542)
                      ++.++.+.+.. +.+..++..+..++...|++++|.++++++......  |   +...+..+...+...|++++|.+.|+
T Consensus       657 ~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~  735 (1157)
T PRK11447        657 RAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYK  735 (1157)
T ss_pred             HHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999888642 224566777888999999999999999999875322  2   23466777888999999999999999


Q ss_pred             HHhh
Q 009143          536 KWLL  539 (542)
Q Consensus       536 ~~l~  539 (542)
                      +++.
T Consensus       736 ~Al~  739 (1157)
T PRK11447        736 DAMV  739 (1157)
T ss_pred             HHHh
Confidence            9974

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=2.8e-21  Score=189.50  Aligned_cols=310  Identities=15%  Similarity=0.102  Sum_probs=254.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC---hHHHHHHHHH
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPN---RVTHNILVHA  232 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~l~~~  232 (542)
                      .......+...|++++|.+.|+++.+.++ .+..++..+...+...|++++|..+++.+...+..++   ..++..++..
T Consensus        38 ~y~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~  116 (389)
T PRK11788         38 DYFKGLNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQD  116 (389)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            33344556788999999999999998765 4677899999999999999999999999987532222   2567888999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHh
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD----IVAYNVLINGFCL  308 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~  308 (542)
                      |.+.|++++|.++|+++.+..+    .+..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+
T Consensus       117 ~~~~g~~~~A~~~~~~~l~~~~----~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  192 (389)
T PRK11788        117 YLKAGLLDRAEELFLQLVDEGD----FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALA  192 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHcCCc----chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHh
Confidence            9999999999999999998765    7788999999999999999999999999988753332    2245677888899


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 009143          309 NGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREF  388 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  388 (542)
                      .|++++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|.+.|++++|...
T Consensus       193 ~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~  271 (389)
T PRK11788        193 RGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEF  271 (389)
T ss_pred             CCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998764 3346678888899999999999999999998764333345688899999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHH
Q 009143          389 LLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEML  468 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~  468 (542)
                      ++++.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+..+++.++..+..  ....|+.+++..++++|.
T Consensus       272 l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~--~~~~g~~~~a~~~~~~~~  345 (389)
T PRK11788        272 LRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLA--EAEEGRAKESLLLLRDLV  345 (389)
T ss_pred             HHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhh--ccCCccchhHHHHHHHHH
Confidence            99998864  45566788999999999999999999998875  6898888888776321  123899999999999999


Q ss_pred             hCCCCCCHH
Q 009143          469 RRGITPDII  477 (542)
Q Consensus       469 ~~g~~p~~~  477 (542)
                      +.++.|++.
T Consensus       346 ~~~~~~~p~  354 (389)
T PRK11788        346 GEQLKRKPR  354 (389)
T ss_pred             HHHHhCCCC
Confidence            877777765

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.91  E-value=4.4e-19  Score=194.96  Aligned_cols=404  Identities=14%  Similarity=0.075  Sum_probs=264.6

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC------------------C--------------CChhhH-------
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGT------------------V--------------PDVLTH-------  156 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~------------------~--------------p~~~~~-------  156 (542)
                      .++..+..+...+...|+.++|+..++++.+...                  .              |+....       
T Consensus       179 ~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L  258 (1157)
T PRK11447        179 GNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQL  258 (1157)
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHH
Confidence            4566788899999999999999999998765321                  0              110000       


Q ss_pred             --------------HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCC-
Q 009143          157 --------------NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRP-  221 (542)
Q Consensus       157 --------------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-  221 (542)
                                    ......+...|++++|+..|++..+..| .+...+..+...+.+.|++++|+..|++..+..... 
T Consensus       259 ~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~  337 (1157)
T PRK11447        259 AEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSS  337 (1157)
T ss_pred             HHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcc
Confidence                          0123456678999999999999988765 377888999999999999999999999988753221 


Q ss_pred             ChHHH------------HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          222 NRVTH------------NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       222 ~~~~~------------~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      +...+            ......+.+.|++++|++.+++++...+    .+...+..+...+...|++++|++.|+++.+
T Consensus       338 ~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P----~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~  413 (1157)
T PRK11447        338 NRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDN----TDSYAVLGLGDVAMARKDYAAAERYYQQALR  413 (1157)
T ss_pred             chhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            11111            2234567789999999999999999877    6778888999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC--------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF--------LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       290 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~--------~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      .. +.+...+..+...+. .++.++|..+++.+.....        ......+..+...+...|++++|...+++..+..
T Consensus       414 ~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~  491 (1157)
T PRK11447        414 MD-PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD  491 (1157)
T ss_pred             hC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            64 344555555554442 2344444444433221100        0001122233344444555555555555554432


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH------------------------------------
Q 009143          362 VAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWN------------------------------------  405 (542)
Q Consensus       362 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~------------------------------------  405 (542)
                       +-+...+..+...|.+.|++++|...++++.+..+. +...+.                                    
T Consensus       492 -P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~  569 (1157)
T PRK11447        492 -PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQ  569 (1157)
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHH
Confidence             112334444444555555555555555554443222 222222                                    


Q ss_pred             --------HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHH
Q 009143          406 --------VIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDII  477 (542)
Q Consensus       406 --------~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  477 (542)
                              .+...+...|++++|..+++.     .+++...+..+-..     +.+.|++++|++.|++..+.. +.+..
T Consensus       570 ~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~-----~~~~g~~~~A~~~y~~al~~~-P~~~~  638 (1157)
T PRK11447        570 RLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADW-----AQQRGDYAAARAAYQRVLTRE-PGNAD  638 (1157)
T ss_pred             HHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHH-----HHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence                    234445556666666666551     12233333333333     678899999999999999863 33568


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      .+..++..|...|++++|.+.++...+.. +.+...+..+..++...|++++|.++++++++.
T Consensus       639 a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        639 ARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            88899999999999999999999887653 235566777888999999999999999998764

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

Probab=99.91  E-value=5.3e-21  Score=179.09  Aligned_cols=399  Identities=17%  Similarity=0.146  Sum_probs=335.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      ..-.+-..+.+..+++.....-...++.. +--..+|..+.+.+-..|++++|..+++.+.+..++ .+..|..+..++.
T Consensus        84 ~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~-fida~inla~al~  161 (966)
T KOG4626|consen   84 RLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKERGQLQDALALYRAAIELKPK-FIDAYINLAAALV  161 (966)
T ss_pred             ceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHH
Confidence            33444456777777777766555555542 335678999999999999999999999999997763 7889999999999


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHH-HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTH-NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      ..|+.+.|.+.|.+..+.  .|+.... ..+.......|++++|...+.+.++..+    .-..+|+.|...+-..|+..
T Consensus       162 ~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp----~fAiawsnLg~~f~~~Gei~  235 (966)
T KOG4626|consen  162 TQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQP----CFAIAWSNLGCVFNAQGEIW  235 (966)
T ss_pred             hcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCC----ceeeeehhcchHHhhcchHH
Confidence            999999999999998874  4665443 3455566678999999999999999877    77889999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      .|+..|++....+ +.-...|-.|...|...+.+++|+..|.+..... +.....+..+...|...|.+|.|+..+++..
T Consensus       236 ~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral  313 (966)
T KOG4626|consen  236 LAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRAL  313 (966)
T ss_pred             HHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHH
Confidence            9999999999875 4457789999999999999999999999988762 3346778888889999999999999999998


Q ss_pred             HCCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-
Q 009143          359 KTGVAPD-QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV-  436 (542)
Q Consensus       359 ~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-  436 (542)
                      +.  .|+ ...|+.|..++-..|++.+|.+.+.+.+...+. .....+.|...|...|.+++|..+|....+  +.|.- 
T Consensus       314 ~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~a  388 (966)
T KOG4626|consen  314 EL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFA  388 (966)
T ss_pred             hc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhh
Confidence            85  444 678999999999999999999999999987665 678899999999999999999999999988  45654 


Q ss_pred             HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHH
Q 009143          437 FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFR  515 (542)
Q Consensus       437 ~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~  515 (542)
                      ...+.+-..     |-+.|++++|+..+++.++.  .|+. ..|+.+...|-..|+.+.|...+.+.+..++. =...++
T Consensus       389 aa~nNLa~i-----~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt-~AeAhs  460 (966)
T KOG4626|consen  389 AAHNNLASI-----YKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPT-FAEAHS  460 (966)
T ss_pred             hhhhhHHHH-----HHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcH-HHHHHh
Confidence            334444443     77889999999999999974  7775 78999999999999999999999999886432 356788


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          516 ILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       516 ~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      .|...|..+|+..+|+.-|+.+|+.+
T Consensus       461 NLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  461 NLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             hHHHHhhccCCcHHHHHHHHHHHccC
Confidence            99999999999999999999997653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=9e-19  Score=180.16  Aligned_cols=334  Identities=10%  Similarity=0.010  Sum_probs=269.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      -.-.++..+.+.|++++|..+++..+..... +...+..++.+....|+++.|.+.++++.+..| .+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P-~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVNV-CQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHH
Confidence            3445677888999999999999999887433 455666777778889999999999999998776 36778888999999


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ  279 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  279 (542)
                      +.|++++|...++++.+.. +.+...+..+...+...|++++|...++.+....+    .+...+..+. .+...|++++
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P----~~~~a~~~~~-~l~~~g~~~e  195 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP----PRGDMIATCL-SFLNKSRLPE  195 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC----CCHHHHHHHH-HHHHcCCHHH
Confidence            9999999999999998752 33567788899999999999999999998887766    4444444443 4788999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHH
Q 009143          280 ALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE----ASHFYG  355 (542)
Q Consensus       280 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~----A~~~~~  355 (542)
                      |...++.+.+....++...+..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++    |...++
T Consensus       196 A~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~  274 (656)
T PRK15174        196 DHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWR  274 (656)
T ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHH
Confidence            99999998876533455556666788899999999999999999874 4467778889999999999986    799999


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          356 VLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN  435 (542)
Q Consensus       356 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (542)
                      ...+.. +.+...+..+...+.+.|++++|...+++..+..+. +...+..+..++.+.|++++|...|+++.+.  .|+
T Consensus       275 ~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~  350 (656)
T PRK15174        275 HALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLARE--KGV  350 (656)
T ss_pred             HHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--Ccc
Confidence            988864 345778889999999999999999999999987655 6777888999999999999999999999874  455


Q ss_pred             HHHHHHHHHHhhcccccccCChHHHHHHHHHHHhC
Q 009143          436 VFTFNALILAETRGASCNLGHIHLALQLYDEMLRR  470 (542)
Q Consensus       436 ~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~  470 (542)
                      ...+......    .+...|+.++|.+.|++..+.
T Consensus       351 ~~~~~~~~a~----al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        351 TSKWNRYAAA----ALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             chHHHHHHHH----HHHHCCCHHHHHHHHHHHHHh
Confidence            4333322211    156789999999999999875

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=1.4e-18  Score=178.85  Aligned_cols=359  Identities=11%  Similarity=0.021  Sum_probs=283.4

Q ss_pred             HhcCChHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhh
Q 009143          129 CLGGKIGTALWLRRKMIQK--GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDK  206 (542)
Q Consensus       129 ~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  206 (542)
                      .++.+++.-.-+|....+.  ....+..-...++..+.+.|++++|..+++......+. +...+..++.+....|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHH
Confidence            3455555544444443332  11123344556777788999999999999999987775 45556666677788999999


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          207 ALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWND  286 (542)
Q Consensus       207 A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  286 (542)
                      |...++++.... +.+...+..+...+...|++++|...+++++...+    .+...+..++..+...|++++|...++.
T Consensus        95 A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P----~~~~a~~~la~~l~~~g~~~eA~~~~~~  169 (656)
T PRK15174         95 VLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFS----GNSQIFALHLRTLVLMDKELQAISLART  169 (656)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            999999998863 33567888899999999999999999999999876    7888999999999999999999999998


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 009143          287 MFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQ  366 (542)
Q Consensus       287 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  366 (542)
                      +.... +.+...+..+ ..+...|++++|...++.+.+....++...+..+...+...|++++|...++...+.. +.+.
T Consensus       170 ~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~  246 (656)
T PRK15174        170 QAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGA  246 (656)
T ss_pred             HHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCH
Confidence            87764 3344444444 3478899999999999998876433445555666778899999999999999998864 3457


Q ss_pred             hhHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHH
Q 009143          367 ISYKTIIQGLCIHGDIVK----AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVF-TFNA  441 (542)
Q Consensus       367 ~~~~~li~~~~~~g~~~~----A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~  441 (542)
                      ..+..+...+...|++++    |...++++++..+. +...+..+...+.+.|++++|...+++..+.  .|+.. .+..
T Consensus       247 ~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~  323 (656)
T PRK15174        247 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAM  323 (656)
T ss_pred             HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            788889999999999885    89999999987665 7889999999999999999999999999984  45543 3333


Q ss_pred             HHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHcC
Q 009143          442 LILAETRGASCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGHCARGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       442 ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  506 (542)
                      +...     +...|++++|...++++.+.  .|+. ..+..+..++...|++++|...|++..+..
T Consensus       324 La~~-----l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        324 YARA-----LRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHH-----HHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            3333     67889999999999999986  4554 334446778899999999999999998753

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.88  E-value=4.1e-18  Score=179.07  Aligned_cols=406  Identities=11%  Similarity=0.008  Sum_probs=294.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      ++..-.-.+......|+.++|+.++.+..... +.+...+..+...+...|++++|.+++++..+..| .+...+..++.
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~   91 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP-QNDDYQRGLIL   91 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            33334556667778899999999999988632 34555688899999999999999999999888655 35667778888


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      .+...|++++|+..++++.+. .+.+.. +..+..++...|+.++|...++++++..+    .+...+..+...+...|.
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P----~~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAP----QTQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHCCC
Confidence            899999999999999999876 233455 88888888999999999999999999877    677777788888888899


Q ss_pred             HHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHH-----hCCCH---HHHHHHHHHHHHc-CCCCCHH-HH----HH
Q 009143          277 KFQALALWNDMFQKNIQTDI------VAYNVLINGFC-----LNGDI---SSAFAYFCQMLKR-GFLPDVI-TY----NT  336 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~-----~~~~~---~~A~~~~~~~~~~-~~~p~~~-~~----~~  336 (542)
                      .+.|++.++....   .|+.      .....++....     ..+++   ++|++.++.+.+. ...|+.. .+    ..
T Consensus       166 ~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d  242 (765)
T PRK10049        166 SAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARID  242 (765)
T ss_pred             hHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHH
Confidence            9999988886654   2221      11122222222     12234   6788888888754 2233321 11    11


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHH
Q 009143          337 LLNCLCKQGKLDEASHFYGVLSKTGVA-PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP---EPHIWNVIIDGYG  412 (542)
Q Consensus       337 li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~~  412 (542)
                      .+..+...|++++|...|+.+.+.+.+ |+. ....+...|...|++++|+..++++.......   .......+..++.
T Consensus       243 ~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~  321 (765)
T PRK10049        243 RLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLL  321 (765)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHH
Confidence            133456778999999999998887532 322 22235678889999999999999988654321   1345666777889


Q ss_pred             hcCChHHHHHHHHHHHhCCC-----------CCCHH---HHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHH
Q 009143          413 RCGDLSNAFSIRDLMLSFGV-----------SSNVF---TFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIIT  478 (542)
Q Consensus       413 ~~g~~~~A~~~~~~m~~~~~-----------~p~~~---~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  478 (542)
                      ..|++++|...++.+.+...           .|+..   .+......     +...|++++|++.++++.... +.+...
T Consensus       322 ~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~-----l~~~g~~~eA~~~l~~al~~~-P~n~~l  395 (765)
T PRK10049        322 ESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQV-----AKYSNDLPQAEMRARELAYNA-PGNQGL  395 (765)
T ss_pred             hcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHH-----HHHcCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            99999999999999887421           12321   12222222     567799999999999998753 335678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          479 YTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       479 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      +..++..+...|++++|++.+++..+.. +.+...+...+..+...|++++|+++++++++.+
T Consensus       396 ~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        396 RIDYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            8889999999999999999999988864 2346667777778899999999999999997653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.88  E-value=1.4e-17  Score=175.14  Aligned_cols=232  Identities=11%  Similarity=0.012  Sum_probs=159.8

Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 009143          295 DIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQ  374 (542)
Q Consensus       295 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  374 (542)
                      +...|..+..++.. ++.++|+..+.+....  .|+......+...+...|++++|...|+.+...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            34444555555544 5666677766666654  355444333444456778888888888776553  344445556666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccccccc
Q 009143          375 GLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNL  454 (542)
Q Consensus       375 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  454 (542)
                      .+.+.|+.++|...+++.++.++. +...+..+.....+.|++++|...+++..+.  .|+...+..+-..     +.+.
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~-----l~~l  622 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATI-----YRQR  622 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHH-----HHHC
Confidence            777788888888888888776532 3333334444445568888888888888874  4565556555544     6677


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHH
Q 009143          455 GHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIH  534 (542)
Q Consensus       455 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~  534 (542)
                      |+.++|+..+++..+.. +.+...+..+..++...|++++|...+++..+..+ -+...+..+..++...|++++|...+
T Consensus       623 G~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l  700 (987)
T PRK09782        623 HNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYA  700 (987)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88889988888888863 22456777888888888999999998888888643 46777888888889999999999999


Q ss_pred             HHHhhcC
Q 009143          535 QKWLLRN  541 (542)
Q Consensus       535 ~~~l~~~  541 (542)
                      +++++.+
T Consensus       701 ~~Al~l~  707 (987)
T PRK09782        701 RLVIDDI  707 (987)
T ss_pred             HHHHhcC
Confidence            8886543

>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=99.88  E-value=1.2e-17  Score=172.49  Aligned_cols=397  Identities=13%  Similarity=0.011  Sum_probs=285.2

Q ss_pred             hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHH
Q 009143           96 ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHV  175 (542)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  175 (542)
                      +.++.+...++...   .+.|+...|..+...|.+.|++++|+..++..++.. +.+...|..+..+|...|++++|+.-
T Consensus       141 ~~~~~Ai~~y~~al---~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~  216 (615)
T TIGR00990       141 KDFNKAIKLYSKAI---ECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLD  216 (615)
T ss_pred             CCHHHHHHHHHHHH---hcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34455555444432   456788889999999999999999999999999864 33567899999999999999999988


Q ss_pred             HHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHH---------------------------CCCCCCh-HHHH
Q 009143          176 IREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMAN---------------------------NGIRPNR-VTHN  227 (542)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---------------------------~g~~p~~-~~~~  227 (542)
                      |..+.......+.. ...++..+.......++...++.-..                           ....+.. ..+.
T Consensus       217 ~~~~~~~~~~~~~~-~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  295 (615)
T TIGR00990       217 LTASCIIDGFRNEQ-SAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQL  295 (615)
T ss_pred             HHHHHHhCCCccHH-HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchH
Confidence            87665543322221 11111111111001111111110000                           0000000 0111


Q ss_pred             HHHHH---HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          228 ILVHA---LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       228 ~l~~~---~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      .+...   ....+++++|.+.|++.+..+. ..+.....++.+...+...|++++|+..+++..+.. +.+...|..+..
T Consensus       296 ~l~~~~~e~~~~~~y~~A~~~~~~al~~~~-~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~  373 (615)
T TIGR00990       296 QLGLKSPESKADESYEEAARAFEKALDLGK-LGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRAS  373 (615)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHH
Confidence            11111   1234688999999999998653 112567789999999999999999999999999874 445778999999


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH
Q 009143          305 GFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVK  384 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  384 (542)
                      .+...|++++|...|+++.+.. +.+...+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++
T Consensus       374 ~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~e  451 (615)
T TIGR00990       374 MNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIAS  451 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998874 4467889999999999999999999999998864 3356778888889999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH--HHH-HHhhcccccccCChHHHH
Q 009143          385 AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFN--ALI-LAETRGASCNLGHIHLAL  461 (542)
Q Consensus       385 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~--~ll-~~~~~~~~~~~g~~~~A~  461 (542)
                      |+..+++.++..+. +...|+.+...+...|++++|.+.|++..+.....+....+  .++ .+..  .+...|++++|.
T Consensus       452 A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~--~~~~~~~~~eA~  528 (615)
T TIGR00990       452 SMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALA--LFQWKQDFIEAE  528 (615)
T ss_pred             HHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHH--HHHHhhhHHHHH
Confidence            99999999986544 68899999999999999999999999988743211111111  111 1100  033469999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          462 QLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       462 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      +++++..... +.+...+..++..+.+.|++++|.+.|++..+.
T Consensus       529 ~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       529 NLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            9999998863 223467889999999999999999999999875

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.85  E-value=8.1e-16  Score=158.78  Aligned_cols=432  Identities=11%  Similarity=-0.002  Sum_probs=308.5

Q ss_pred             HHHHHHHHhhHHHHHHHHhhCCCCCCCCCCh--hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHH
Q 009143           88 NALDLILKENLDRLKTMRDTGPVRCTLETDY--RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCK  165 (542)
Q Consensus        88 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  165 (542)
                      .++...-.+..+.+...+....   ...|+.  ..+ .++..+...|+.++|+..+++.... ...+......+...|..
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL---~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~  114 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEES---KAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRN  114 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHH---hhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHH
Confidence            3444444444444444443332   233543  234 7888888889999999999998822 12223333344667888


Q ss_pred             cCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHH
Q 009143          166 IGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKF  245 (542)
Q Consensus       166 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~  245 (542)
                      .|++++|+++|+++.+..|. +...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.
T Consensus       115 ~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        115 EKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             cCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHH
Confidence            89999999999999998775 5677778888899999999999999998775  46666665555555556677679999


Q ss_pred             HHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH--------HHHHHHH-----HhCCC-
Q 009143          246 LGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAY--------NVLINGF-----CLNGD-  311 (542)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--------~~li~~~-----~~~~~-  311 (542)
                      ++++++..+    .+...+..+...+.+.|-...|.++..+-.+.   .+...+        ..+++.-     ....+ 
T Consensus       192 ~ekll~~~P----~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~---f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        192 SSEAVRLAP----TSEEVLKNHLEILQRNRIVEPALRLAKENPNL---VSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHhCC----CCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc---cCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            999999887    78888899999999999998888777654321   111111        1111110     01122 


Q ss_pred             --HHHHHHHHHHHHHc-CCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 009143          312 --ISSAFAYFCQMLKR-GFLPDV-----ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIV  383 (542)
Q Consensus       312 --~~~A~~~~~~~~~~-~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  383 (542)
                        .+.|+.-++.+... +..|..     ....-.+-++...|+..++++.++.+...+.+....+-..+.++|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence              34455555555542 222322     1223445678889999999999999998886655668889999999999999


Q ss_pred             HHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCC-------------CCCCHHHHHHHHHH
Q 009143          384 KAREFLLSMLEKSV-----VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFG-------------VSSNVFTFNALILA  445 (542)
Q Consensus       384 ~A~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-------------~~p~~~~~~~ll~~  445 (542)
                      +|..+++.+.....     .++......|.-+|...+++++|..+++.+.+..             ..||-..+..+...
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~  424 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQ  424 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHH
Confidence            99999999976542     2344446789999999999999999999998731             22343444333333


Q ss_pred             hhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcC
Q 009143          446 ETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMK  525 (542)
Q Consensus       446 ~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g  525 (542)
                      +    +...|++.+|++.++++.... +-|......+.+.+...|.+.+|.+.++...... +.+..+....+.++...|
T Consensus       425 ~----~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~  498 (822)
T PRK14574        425 S----LVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQ  498 (822)
T ss_pred             H----HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhh
Confidence            2    567799999999999998864 4478889999999999999999999997777663 335677778888999999


Q ss_pred             ChhHHHHHHHHHhhc
Q 009143          526 ESDKARDIHQKWLLR  540 (542)
Q Consensus       526 ~~~~A~~~~~~~l~~  540 (542)
                      ++.+|.++.++.++.
T Consensus       499 e~~~A~~~~~~l~~~  513 (822)
T PRK14574        499 EWHQMELLTDDVISR  513 (822)
T ss_pred             hHHHHHHHHHHHHhh
Confidence            999999999887654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=2.1e-16  Score=166.23  Aligned_cols=389  Identities=12%  Similarity=0.012  Sum_probs=283.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .+...+..+...+...|++++|..++++.++.. +.+...+..++..+...|++++|...++++.+..| .+.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P-~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAP-DKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHH
Confidence            455578999999999999999999999998863 34567788889999999999999999999998765 3566 88899


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-CCCcHHHHHHHHHHHH--
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK-ATSDVITSTILMDSYF--  272 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~--  272 (542)
                      .++...|+.++|+..++++.+.. +.+...+..+...+...|..++|.+.++.+.. .+.. ..........++....  
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~  201 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMP  201 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999999999999863 33556667788888899999999999987654 2100 0000112222333332  


Q ss_pred             ---hcCCH---HHHHHHHHHHHHC-CCCCCHH-HH----HHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHH
Q 009143          273 ---KNGDK---FQALALWNDMFQK-NIQTDIV-AY----NVLINGFCLNGDISSAFAYFCQMLKRGFL-PDVITYNTLLN  339 (542)
Q Consensus       273 ---~~g~~---~~a~~~~~~~~~~-~~~~~~~-~~----~~li~~~~~~~~~~~A~~~~~~~~~~~~~-p~~~~~~~li~  339 (542)
                         ..+++   ++|++.++.+.+. ...|+.. .+    ...+..+...|++++|+..|+++.+.+.. |+. ....+..
T Consensus       202 ~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~  280 (765)
T PRK10049        202 TRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVAS  280 (765)
T ss_pred             ccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHH
Confidence               22234   7788888888854 1122221 11    11134556779999999999999987532 332 2233577


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCC---HH
Q 009143          340 CLCKQGKLDEASHFYGVLSKTGVAP---DQISYKTIIQGLCIHGDIVKAREFLLSMLEKSV-----------VPE---PH  402 (542)
Q Consensus       340 ~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~---~~  402 (542)
                      .|...|++++|...|+.+.+.....   .......+..++.+.|++++|.++++.+.+..+           .|+   ..
T Consensus       281 ~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~  360 (765)
T PRK10049        281 AYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQ  360 (765)
T ss_pred             HHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHH
Confidence            8999999999999999987653211   123456667788999999999999999987642           123   23


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCC-HHHHH
Q 009143          403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV-FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPD-IITYT  480 (542)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~  480 (542)
                      .+..+...+...|++++|+++++++...  .|+. ..+..+...     +...|++++|++.+++..+.  .|+ ...+.
T Consensus       361 a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l-----~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~  431 (765)
T PRK10049        361 GQSLLSQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYASV-----LQARGWPRAAENELKKAEVL--EPRNINLEV  431 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHhh--CCCChHHHH
Confidence            4567788899999999999999999874  3443 344444443     66789999999999999986  455 56777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHH
Q 009143          481 ELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRY  521 (542)
Q Consensus       481 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~  521 (542)
                      .++..+...|++++|..+++++.+.  .|+......+-..+
T Consensus       432 ~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~~~~~~~~~  470 (765)
T PRK10049        432 EQAWTALDLQEWRQMDVLTDDVVAR--EPQDPGVQRLARAR  470 (765)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            7788899999999999999999985  35555444444433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=5e-15  Score=152.97  Aligned_cols=400  Identities=12%  Similarity=0.020  Sum_probs=291.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDV--LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGY  198 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  198 (542)
                      |... -...+.|+++.|+..|++..+..  |+.  ..+ .++..+...|+.++|+..+++.....+ ........+...+
T Consensus        38 y~~a-ii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n-~~~~~llalA~ly  112 (822)
T PRK14574         38 YDSL-IIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMN-ISSRGLASAARAY  112 (822)
T ss_pred             HHHH-HHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCC-CCHHHHHHHHHHH
Confidence            4433 35678999999999999999863  443  234 888889999999999999999973221 2233334446688


Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      ...|++++|+++|+++.+.. +-+...+..++..+...++.++|++.++++....+     +...+..++..+...++..
T Consensus       113 ~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp-----~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        113 RNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDP-----TVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCc-----chHHHHHHHHHHHhcchHH
Confidence            88999999999999999874 33567777888999999999999999999988764     3444555555555567776


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH------HHHHHHHH-----HhcCC-
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVIT------YNTLLNCL-----CKQGK-  346 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~------~~~li~~~-----~~~g~-  346 (542)
                      +|++.++++.+.. +.+...+..+..++.+.|-...|+++..+-... +.+...-      ...+++.-     ...++ 
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            7999999999986 667888899999999999999998877653321 1111110      11111110     01122 


Q ss_pred             --HHHHHHHHHHHHHC-CCCCCh-h----hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 009143          347 --LDEASHFYGVLSKT-GVAPDQ-I----SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLS  418 (542)
Q Consensus       347 --~~~A~~~~~~~~~~-~~~~~~-~----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  418 (542)
                        .+.|+.-++.+... +..|.. .    ...-.+-++...|++.++++.++.+...+.+....+-..+.++|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence              34455555555542 222322 2    222344567789999999999999998886656678889999999999999


Q ss_pred             HHHHHHHHHHhCC-----CCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCC-----------CCCH---HHH
Q 009143          419 NAFSIRDLMLSFG-----VSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGI-----------TPDI---ITY  479 (542)
Q Consensus       419 ~A~~~~~~m~~~~-----~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~-----------~p~~---~~~  479 (542)
                      +|..+|+.+....     ..++......|..+     +...+++++|..+++++.+...           .||.   ..+
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA-----~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~  419 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYS-----LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQ  419 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHH-----HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHH
Confidence            9999999997642     12233334556655     6677999999999999998311           1222   234


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          480 TELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       480 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      ..++..+...|++.+|++.++++.... +-|......+.+.+...|++.+|++.++.++.
T Consensus       420 ~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~  478 (822)
T PRK14574        420 TLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVES  478 (822)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Confidence            456778889999999999999998864 45899999999999999999999999988643

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

Probab=99.82  E-value=6.4e-16  Score=152.87  Aligned_cols=413  Identities=14%  Similarity=0.068  Sum_probs=273.0

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTV--PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNA  193 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  193 (542)
                      .|+...+.|.+.|.-.|++..+..+...++.....  .-...|..+.++|-..|++++|...|.+..+..+..-+..+--
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~G  347 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVG  347 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccc
Confidence            57788899999999999999999999998876321  1234578899999999999999999988887654332455667


Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC----ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          194 FITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG----LLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      +...|.+.|+.+.+...|+...+. .+-+..|...|...|...+    ..+.|..++.+..+..+    .|...|..+..
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~-~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~----~d~~a~l~laq  422 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQ-LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTP----VDSEAWLELAQ  422 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHh-CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhccc----ccHHHHHHHHH
Confidence            889999999999999999999876 3445677778888777765    56788888888888766    88889988888


Q ss_pred             HHHhcCCHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc---CCCCC------HHHHHH
Q 009143          270 SYFKNGDKFQALALWNDMF----QKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR---GFLPD------VITYNT  336 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~---~~~p~------~~~~~~  336 (542)
                      .+....-+.. +.+|....    ..+-++.+...|.+...+...|+++.|...|......   ...+|      ..+--.
T Consensus       423 l~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN  501 (1018)
T KOG2002|consen  423 LLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN  501 (1018)
T ss_pred             HHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH
Confidence            8876554444 66665543    4455688889999999999999999999999988754   12222      223344


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009143          337 LLNCLCKQGKLDEASHFYGVLSKTGVAPD-QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCG  415 (542)
Q Consensus       337 li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  415 (542)
                      +...+-..++.+.|.+.|..+.+..  |. +..|..+.......+...+|...++..+..+-. ++..+..+...+.+..
T Consensus       502 larl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~-np~arsl~G~~~l~k~  578 (1018)
T KOG2002|consen  502 LARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSS-NPNARSLLGNLHLKKS  578 (1018)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccC-CcHHHHHHHHHHHhhh
Confidence            5666677788888888888888753  33 333444433333346677777777777665432 5555555555555555


Q ss_pred             ChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHhhc-----------------------------------------ccccc
Q 009143          416 DLSNAFSIRDLMLSFG-VSSNVFTFNALILAETR-----------------------------------------GASCN  453 (542)
Q Consensus       416 ~~~~A~~~~~~m~~~~-~~p~~~~~~~ll~~~~~-----------------------------------------~~~~~  453 (542)
                      .+..|.+-|..+.+.. ..+|.++..+|-..|..                                         -.++.
T Consensus       579 ~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  579 EWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAE  658 (1018)
T ss_pred             hhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhh
Confidence            5555555444443311 12333333333222220                                         01445


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhH-cCCCCChhHHHHHHHHHHhcCChhHHHH
Q 009143          454 LGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQT-LGLAIDHIPFRILKKRYRRMKESDKARD  532 (542)
Q Consensus       454 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~~~~~~~~~l~~~~~~~g~~~~A~~  532 (542)
                      .|++.+|..+|.+.++... -...+|..+.++|...|+|..|+++|+...+ .....+..+...|.+++...|++.+|.+
T Consensus       659 kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~  737 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKE  737 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHH
Confidence            5666666666666655322 1334555566666666666666666665544 3334455555666666666666666666


Q ss_pred             HHHHHh
Q 009143          533 IHQKWL  538 (542)
Q Consensus       533 ~~~~~l  538 (542)
                      ...+++
T Consensus       738 ~ll~a~  743 (1018)
T KOG2002|consen  738 ALLKAR  743 (1018)
T ss_pred             HHHHHH
Confidence            655553

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=7.6e-15  Score=154.81  Aligned_cols=156  Identities=12%  Similarity=-0.078  Sum_probs=110.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHhhccccc
Q 009143          374 QGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFT-FNALILAETRGASC  452 (542)
Q Consensus       374 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~  452 (542)
                      ..+...|++++|...++++...  .|+...+..+..++.+.|++++|...++...+..  |+... +..+...     ..
T Consensus       517 ~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~-----l~  587 (987)
T PRK09782        517 YQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQ-----RY  587 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHH-----HH
Confidence            3344667777777777776543  2333445566666777777777777777777643  33322 2111111     23


Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHH
Q 009143          453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARD  532 (542)
Q Consensus       453 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~  532 (542)
                      ..|++++|...+++..+.  .|+...|..+..++.+.|++++|...+++..+..+ .+...+..+..++...|+.++|++
T Consensus       588 ~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~P-d~~~a~~nLG~aL~~~G~~eeAi~  664 (987)
T PRK09782        588 IPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEP-NNSNYQAALGYALWDSGDIAQSRE  664 (987)
T ss_pred             hCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHH
Confidence            458899999999888875  56778888888899999999999999999888643 366777888888999999999999


Q ss_pred             HHHHHhhcC
Q 009143          533 IHQKWLLRN  541 (542)
Q Consensus       533 ~~~~~l~~~  541 (542)
                      .++++++.+
T Consensus       665 ~l~~AL~l~  673 (987)
T PRK09782        665 MLERAHKGL  673 (987)
T ss_pred             HHHHHHHhC
Confidence            999887643

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=3.5e-14  Score=128.24  Aligned_cols=408  Identities=13%  Similarity=0.116  Sum_probs=289.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH--HcCChhHH-HHHHHHH---------------
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELC--KIGDLEKA-DHVIREM---------------  179 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~--~~g~~~~A-~~~~~~~---------------  179 (542)
                      +.+=|.|+.. ..+|.+.++.-+|+.|.+.|+..+...-..|++.-+  ...++--| .+-|-.|               
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            3455666654 567899999999999999988877766666555432  11111111 1111111               


Q ss_pred             -----hhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 009143          180 -----SEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       180 -----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  254 (542)
                           .+.-| .+..++..||.++|+.-..+.|.+++++......+.+..+||.+|.+-.-..    ..+++.+|.....
T Consensus       195 vAdL~~E~~P-KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm  269 (625)
T KOG4422|consen  195 VADLLFETLP-KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKM  269 (625)
T ss_pred             HHHHHHhhcC-CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhc
Confidence                 11113 3668999999999999999999999999988878889999999987655332    2778888887755


Q ss_pred             CCCCCcHHHHHHHHHHHHhcCCHHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHH-HHHHHHHHHHc----
Q 009143          255 GKATSDVITSTILMDSYFKNGDKFQ----ALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISS-AFAYFCQMLKR----  325 (542)
Q Consensus       255 ~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~~~~~----  325 (542)
                       .  ||..|+|+++.+..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.+....    
T Consensus       270 -~--Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK  346 (625)
T KOG4422|consen  270 -T--PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGK  346 (625)
T ss_pred             -C--CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccC
Confidence             5  999999999999999998765    56778899999999999999999999999888754 55555555432    


Q ss_pred             CCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 009143          326 GFL----PDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG----VAPD---QISYKTIIQGLCIHGDIVKAREFLLSMLE  394 (542)
Q Consensus       326 ~~~----p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~  394 (542)
                      .++    .|...|...+..|.+..+.+.|.++..-.....    +.|+   ..-|..+....|+....+.-...++.|.-
T Consensus       347 ~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP  426 (625)
T KOG4422|consen  347 TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVP  426 (625)
T ss_pred             cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            122    245667888899999999999999887664321    2333   22466777788999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccC-------------------
Q 009143          395 KSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLG-------------------  455 (542)
Q Consensus       395 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g-------------------  455 (542)
                      .-.-|+..+...++++..-.|.++-.-++|..++..|..-+...-.-++.-+     +...                   
T Consensus       427 ~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L-----~~~k~hp~tp~r~Ql~~~~ak~a  501 (625)
T KOG4422|consen  427 SAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLL-----ARDKLHPLTPEREQLQVAFAKCA  501 (625)
T ss_pred             ceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHH-----hcCCCCCCChHHHHHHHHHHHHH
Confidence            8888899999999999999999999999999988876433322222222221     1111                   


Q ss_pred             --ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcC-CCCChhHHH---HHHHHHHhcCChhH
Q 009143          456 --HIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLG-LAIDHIPFR---ILKKRYRRMKESDK  529 (542)
Q Consensus       456 --~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~~~~~~~~---~l~~~~~~~g~~~~  529 (542)
                        -.+....--.+|...  .......+...-.+.+.|+.++|.+++....+.+ --|-....+   -+++.-.+.+....
T Consensus       502 ad~~e~~e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsq  579 (625)
T KOG4422|consen  502 ADIKEAYESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQ  579 (625)
T ss_pred             HHHHHHHHhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHH
Confidence              011111111223333  3344566777778899999999999999986543 223333344   56677788889999


Q ss_pred             HHHHHHHHhhcC
Q 009143          530 ARDIHQKWLLRN  541 (542)
Q Consensus       530 A~~~~~~~l~~~  541 (542)
                      |...++-|++.|
T Consensus       580 A~~~lQ~a~~~n  591 (625)
T KOG4422|consen  580 AIEVLQLASAFN  591 (625)
T ss_pred             HHHHHHHHHHcC
Confidence            999998886544

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

Probab=99.78  E-value=6.7e-15  Score=145.80  Aligned_cols=426  Identities=16%  Similarity=0.103  Sum_probs=274.8

Q ss_pred             CCCchhHHHHHHHHH--HhhHHHHHHHHhhCCCCCCCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 009143           80 EGNPQAVFNALDLIL--KENLDRLKTMRDTGPVRCTLE-TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTH  156 (542)
Q Consensus        80 ~~~~~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  156 (542)
                      .+.++.+.+.|...+  ++++.++..+........... --..+|..+.++|-..|+++.|...|.+..+....--+..+
T Consensus       266 n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~  345 (1018)
T KOG2002|consen  266 NNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPL  345 (1018)
T ss_pred             cCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccc
Confidence            344556666665443  556655555544432100000 12236888999999999999999999988875322123455


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC----ChhhHHHHHHHHHHCCCCCChHHHHHHHHH
Q 009143          157 NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN----ELDKALHLFSTMANNGIRPNRVTHNILVHA  232 (542)
Q Consensus       157 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  232 (542)
                      .-|.+.|.+.|+++.+...|+.+.+..| .+..+...|...|...+    ..++|..++....+. .+.|...|..+...
T Consensus       346 ~GlgQm~i~~~dle~s~~~fEkv~k~~p-~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~-~~~d~~a~l~laql  423 (1018)
T KOG2002|consen  346 VGLGQMYIKRGDLEESKFCFEKVLKQLP-NNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ-TPVDSEAWLELAQL  423 (1018)
T ss_pred             cchhHHHHHhchHHHHHHHHHHHHHhCc-chHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc-ccccHHHHHHHHHH
Confidence            6688999999999999999999998765 36677777777777764    455666666665554 23466677666666


Q ss_pred             HHhcCChhHHHHHHHHHH----hCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCC------HHHH
Q 009143          233 LCKKGLLGDAVKFLGEVL----ADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK---NIQTD------IVAY  299 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~------~~~~  299 (542)
                      +....-+.. +..+..+.    ..+. .  ......|.+...+...|+++.|...|......   ...++      ..+-
T Consensus       424 ~e~~d~~~s-L~~~~~A~d~L~~~~~-~--ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~  499 (1018)
T KOG2002|consen  424 LEQTDPWAS-LDAYGNALDILESKGK-Q--IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLK  499 (1018)
T ss_pred             HHhcChHHH-HHHHHHHHHHHHHcCC-C--CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHH
Confidence            554433333 55555444    2222 2  55667777777777778877777777776554   11122      2222


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcC---------------------------------CCCCHHHHHHHHHHHHhcCC
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLKRG---------------------------------FLPDVITYNTLLNCLCKQGK  346 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~~~---------------------------------~~p~~~~~~~li~~~~~~g~  346 (542)
                      ..+...+-..++.+.|.+.|....+..                                 ...++..++.+...+.+...
T Consensus       500 YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  500 YNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhh
Confidence            334444444555666666665555441                                 11222333333334444444


Q ss_pred             HHHHHHHHHHHHHC-CCCCChhhHHHHHHHHHh------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 009143          347 LDEASHFYGVLSKT-GVAPDQISYKTIIQGLCI------------HGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR  413 (542)
Q Consensus       347 ~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  413 (542)
                      +..|.+-|..+.+. ...+|..+...|.+.|.+            .+..++|+++|.+++..++. |...-|.+.-.++.
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAE  658 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhh
Confidence            44444444444332 112454555555554432            24578899999999998776 89999999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCH
Q 009143          414 CGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR-RGITPDIITYTELIKGHCARGNM  492 (542)
Q Consensus       414 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~li~~~~~~g~~  492 (542)
                      .|++.+|..+|....+... -...+|..+-++     |..+|++..|+++|+...+ ....-+..+...|.+++.+.|.+
T Consensus       659 kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~-----~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~  732 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATS-DFEDVWLNLAHC-----YVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKL  732 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHh-hCCceeeeHHHH-----HHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhH
Confidence            9999999999999998543 122345555554     6677999999999998776 44455778899999999999999


Q ss_pred             HHHHHHHHHHhHcCCCCChhHHHHHH
Q 009143          493 KEAEEVFAKIQTLGLAIDHIPFRILK  518 (542)
Q Consensus       493 ~~A~~~~~~m~~~g~~~~~~~~~~l~  518 (542)
                      .+|.+.+.......+......||..+
T Consensus       733 ~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  733 QEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHHHHHHHhCCccchHHhHHHH
Confidence            99999999888865544444555443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=1.5e-13  Score=124.27  Aligned_cols=380  Identities=14%  Similarity=0.176  Sum_probs=253.1

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHH
Q 009143          115 ETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAF  194 (542)
Q Consensus       115 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  194 (542)
                      +.+..+|..+|.++|+--..++|.+++++......+.+..+||.+|.+-.-...    .+++.+|......||..|+|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHH
Confidence            356778999999999999999999999988877677788889988877443322    6777888888888999999999


Q ss_pred             HHHHHHcCChhh----HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhH-HHHHHHHHHhC------CCCCCCCcHHH
Q 009143          195 ITGYCRVNELDK----ALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGD-AVKFLGEVLAD------DDGKATSDVIT  263 (542)
Q Consensus       195 i~~~~~~g~~~~----A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~------~~~~~~~~~~~  263 (542)
                      +.+..+.|+++.    |.+++.+|++.|+.|...+|..++..+++.++..+ +..++.++...      .+ ..+.+...
T Consensus       280 L~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  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKP-ITPTDNKF  358 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccC-CCCchhHH
Confidence            999999997764    46778888999999999999999998888877644 44455554432      11 23356677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 009143          264 STILMDSYFKNGDKFQALALWNDMFQKN----IQTD---IVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNT  336 (542)
Q Consensus       264 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~  336 (542)
                      |...+..|....+.+-|.++..-+....    +.|+   ..-|..+....|.....+.....|+.|.-.-.-|+..+...
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            7888888888888888888776665321    2233   23456677777888888888888888887767788888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-C
Q 009143          337 LLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC-G  415 (542)
Q Consensus       337 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g  415 (542)
                      ++++....|.++-.-+++..++..|..-+..     +           -++++..+....+.|+...-..+-.+..+. -
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~-----l-----------~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aa  502 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSD-----L-----------REEILMLLARDKLHPLTPEREQLQVAFAKCAA  502 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHH-----H-----------HHHHHHHHhcCCCCCCChHHHHHHHHHHHHHH
Confidence            8888888888888888888887765322211     1           223334444444344322211111111111 1


Q ss_pred             ChHH-HHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcC
Q 009143          416 DLSN-AFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGI----TPDIITYTELIKGHCARG  490 (542)
Q Consensus       416 ~~~~-A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~----~p~~~~~~~li~~~~~~g  490 (542)
                      ++.+ ....-.+|.+....|....-.+++       +.+.|..++|.+++.-+.+.+-    .|......-+++.-.+.+
T Consensus       503 d~~e~~e~~~~R~r~~~~~~t~l~~ia~L-------l~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~  575 (625)
T KOG4422|consen  503 DIKEAYESQPIRQRAQDWPATSLNCIAIL-------LLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSN  575 (625)
T ss_pred             HHHHHHHhhHHHHHhccCChhHHHHHHHH-------HHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcC
Confidence            2222 222334455555555544433333       5577999999999998865332    233344446667777888


Q ss_pred             CHHHHHHHHHHHhHcCCCCChhHHHHHHHHHH
Q 009143          491 NMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR  522 (542)
Q Consensus       491 ~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~  522 (542)
                      .+..|..+++-|...+...-...-+.+...|.
T Consensus       576 spsqA~~~lQ~a~~~n~~~~E~La~RI~e~f~  607 (625)
T KOG4422|consen  576 SPSQAIEVLQLASAFNLPICEGLAQRIMEDFA  607 (625)
T ss_pred             CHHHHHHHHHHHHHcCchhhhHHHHHHHHhcC
Confidence            89999999998877654322223344444443

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

Probab=99.74  E-value=1e-14  Score=127.07  Aligned_cols=302  Identities=13%  Similarity=0.172  Sum_probs=233.0

Q ss_pred             CchhHHHHHHHHHHhhHHHHHHHHhhCCCCCCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---hhhHH
Q 009143           82 NPQAVFNALDLILKENLDRLKTMRDTGPVRCTLET-DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD---VLTHN  157 (542)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~  157 (542)
                      -|+.+++.++.++++..+++.+.|-.+.   ...| +..+..+|.+.|.+.|..+.|+++++.+.++.-.+.   ..+..
T Consensus        35 lsr~Yv~GlNfLLs~Q~dKAvdlF~e~l---~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~  111 (389)
T COG2956          35 LSRDYVKGLNFLLSNQPDKAVDLFLEML---QEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQ  111 (389)
T ss_pred             ccHHHHhHHHHHhhcCcchHHHHHHHHH---hcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            4678999999999888888877777665   2233 445788999999999999999999999998632222   22345


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh----HHHHHHHHHH
Q 009143          158 YLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR----VTHNILVHAL  233 (542)
Q Consensus       158 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~l~~~~  233 (542)
                      .|..-|...|-+|+|+.+|..+.+.+. --......|+..|-...+|++|+++-+++.+.|-++..    .-|..+...+
T Consensus       112 qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~  190 (389)
T COG2956         112 QLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQA  190 (389)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHH
Confidence            577779999999999999999877443 34567788999999999999999999999887655442    3456677777


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHH
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDIS  313 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  313 (542)
                      ....+++.|..++.+..+.++    ..+.+-..+.+.+...|+++.|.+.|+.+.+.+..--..+...|..+|...|+.+
T Consensus       191 ~~~~~~d~A~~~l~kAlqa~~----~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~  266 (389)
T COG2956         191 LASSDVDRARELLKKALQADK----KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPA  266 (389)
T ss_pred             hhhhhHHHHHHHHHHHHhhCc----cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHH
Confidence            778899999999999999887    7788888899999999999999999999998875556677888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh---cCCHHHHHHHHH
Q 009143          314 SAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI---HGDIVKAREFLL  390 (542)
Q Consensus       314 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~  390 (542)
                      +....+..+.+.  .++...-..+...-....-.+.|...+.+-.+.  .|+...+..+++....   .|...+...+++
T Consensus       267 ~~~~fL~~~~~~--~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr  342 (389)
T COG2956         267 EGLNFLRRAMET--NTGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLR  342 (389)
T ss_pred             HHHHHHHHHHHc--cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHH
Confidence            999999988886  444444555555555555666777666655553  5888888888887654   334556666666


Q ss_pred             HHHhC
Q 009143          391 SMLEK  395 (542)
Q Consensus       391 ~~~~~  395 (542)
                      +|...
T Consensus       343 ~mvge  347 (389)
T COG2956         343 DMVGE  347 (389)
T ss_pred             HHHHH
Confidence            66643

>TIGR00540 hemY_coli hemY protein

Probab=99.72  E-value=6.5e-14  Score=136.89  Aligned_cols=294  Identities=12%  Similarity=0.064  Sum_probs=166.8

Q ss_pred             HcCChhhHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNR-VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      ..|+++.|.+.+.+..+.  .|+. ..+.....+..+.|+.+.|.+.+.++.+..+ .  +...+.......+...|+++
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p-~--~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAG-N--DNILVEIARTRILLAQNELH  170 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-c--CchHHHHHHHHHHHHCCCHH
Confidence            456666666666555443  2332 2333344555555666666666666554332 1  11223333355555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      .|...++.+.+.. |-++..+..+...+...|++++|.+.+..+.+.+.. +...+..+-.                   
T Consensus       171 ~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~-------------------  229 (409)
T TIGR00540       171 AARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQ-------------------  229 (409)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHH-------------------
Confidence            5555555555553 334445555555555555555555555555554322 1111111000                   


Q ss_pred             HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          359 KTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSV---VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN  435 (542)
Q Consensus       359 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (542)
                                  ....++...+..+++.+.+..+.+..+   +.++..+..+...+...|+.++|.+++++..+.  .||
T Consensus       230 ------------~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd  295 (409)
T TIGR00540       230 ------------KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGD  295 (409)
T ss_pred             ------------HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCC
Confidence                        000011111222222333333333222   126667777777777777777777777777764  233


Q ss_pred             HHH--HHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCC-H--HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCC
Q 009143          436 VFT--FNALILAETRGASCNLGHIHLALQLYDEMLRRGITPD-I--ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAID  510 (542)
Q Consensus       436 ~~~--~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~  510 (542)
                      ...  +..+...    .....++.+.+.+.+++..+.  .|+ +  ....++.+.+.+.|++++|.+.|++.......|+
T Consensus       296 ~~~~~~~~l~~~----~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~  369 (409)
T TIGR00540       296 DRAISLPLCLPI----PRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLD  369 (409)
T ss_pred             cccchhHHHHHh----hhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCC
Confidence            321  1111111    133457788888888888774  333 3  5567899999999999999999996554444688


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          511 HIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       511 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      ...+.++...+.+.|+.++|.++|++.+.
T Consensus       370 ~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       370 ANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888999999999999999999999754

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.

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

Probab=99.71  E-value=5.9e-12  Score=119.90  Aligned_cols=407  Identities=13%  Similarity=0.036  Sum_probs=229.7

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHH----hCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCC--CH
Q 009143          115 ETDYRRHVAVIRDLCLGGKIGTALWLRRKMI----QKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSP--NC  188 (542)
Q Consensus       115 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~  188 (542)
                      +.+...|.+-...--.+|+.+....+.++-+    ..|+..+...|..=...+-..|.+-.+..+.......|+.-  --
T Consensus       437 ptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~  516 (913)
T KOG0495|consen  437 PTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRK  516 (913)
T ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhH
Confidence            3566677766666667777777777666533    34666666667666666666666666666666666555432  13


Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      .+|+.-...|.+.+.++-|..+|....+. ++-+...|...+..--..|..+....++++++..-+    .....|....
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~p----kae~lwlM~a  591 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCP----KAEILWLMYA  591 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC----cchhHHHHHH
Confidence            45666666666666666666666666553 233444555555444455666666666666665443    4455555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  348 (542)
                      ..+-..|++..|..++....+.. +.+...|-.-+..-....+++.|..+|.+....  .|+...|..-+..---.++.+
T Consensus       592 ke~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~e  668 (913)
T KOG0495|consen  592 KEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVE  668 (913)
T ss_pred             HHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHH
Confidence            56666666666666666666554 335555666666666666666666666665543  445555544444444455566


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 009143          349 EASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLML  428 (542)
Q Consensus       349 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (542)
                      +|.+++++..+. ++.-...|..+.+.+-+.++++.|.+.|..-.+.-+ -.+..|-.|...-.+.|++-.|..++++..
T Consensus       669 eA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP-~~ipLWllLakleEk~~~~~rAR~ildrar  746 (913)
T KOG0495|consen  669 EALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCP-NSIPLWLLLAKLEEKDGQLVRARSILDRAR  746 (913)
T ss_pred             HHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCC-CCchHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            666666555553 222233444444555555555555555544433321 133344444444445555555555555544


Q ss_pred             hCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhC-----------------------------CCCCCHHHH
Q 009143          429 SFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRR-----------------------------GITPDIITY  479 (542)
Q Consensus       429 ~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~-----------------------------g~~p~~~~~  479 (542)
                      -.+ +-+...|...|..     -.+.|..+.|..++.+.++.                             ...-|+...
T Consensus       747 lkN-Pk~~~lwle~Ir~-----ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVl  820 (913)
T KOG0495|consen  747 LKN-PKNALLWLESIRM-----ELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVL  820 (913)
T ss_pred             hcC-CCcchhHHHHHHH-----HHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhH
Confidence            432 2233444444443     33445555555544444432                             012355555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHh
Q 009143          480 TELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       480 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      ..+...+....++++|.+.|.+..+.+. ....+|.-+...+.+.|.-++-.+++++..
T Consensus       821 laia~lfw~e~k~~kar~Wf~Ravk~d~-d~GD~wa~fykfel~hG~eed~kev~~~c~  878 (913)
T KOG0495|consen  821 LAIAKLFWSEKKIEKAREWFERAVKKDP-DNGDAWAWFYKFELRHGTEEDQKEVLKKCE  878 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccCC-ccchHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            5666666677777777777777777543 245667777777777777777777776653

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

Probab=99.71  E-value=5e-12  Score=115.97  Aligned_cols=425  Identities=13%  Similarity=0.104  Sum_probs=320.9

Q ss_pred             hHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh-hHHHHHHHHHHcCChhHHHHH
Q 009143           97 NLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVL-THNYLVNELCKIGDLEKADHV  175 (542)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~  175 (542)
                      ...+++.+++....  +-..+...|...+..=.++..+..|..++++.+..  -|.+. .|--.+..=-..|++..|.++
T Consensus        88 e~~RARSv~ERALd--vd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   88 EIQRARSVFERALD--VDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHHHHHHHHHHHHh--cccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            45677777766431  11346668888999999999999999999999875  44443 344445555567999999999


Q ss_pred             HHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 009143          176 IREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDG  255 (542)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  255 (542)
                      |++-.+  ..|+...|++.|..=.+.+.++.|..++++..-  +.|++.+|....+.-.+.|+...+..++..+++.-. 
T Consensus       164 ferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~-  238 (677)
T KOG1915|consen  164 FERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLG-  238 (677)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh-
Confidence            999877  578999999999999999999999999999986  459999999999999999999999999998887432 


Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhCCCHHHHHHH--------HHHHHHc
Q 009143          256 KATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD--IVAYNVLINGFCLNGDISSAFAY--------FCQMLKR  325 (542)
Q Consensus       256 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~--------~~~~~~~  325 (542)
                      ....+...+.+...--.++..++.|.-+|.-.++.- +.+  ...|......--+-|+.....+.        |+.+.+.
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~  317 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSK  317 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHh
Confidence            111345567777777777888999999999888763 222  34455555544445654443332        3334444


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh--hHHHHHH-----HH---HhcCCHHHHHHHHHHHHhC
Q 009143          326 GFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQI--SYKTIIQ-----GL---CIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       326 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~li~-----~~---~~~g~~~~A~~~~~~~~~~  395 (542)
                      + +.|-.+|-..++.-...|+.+...++|+..+.. ++|-..  .|...|-     ++   ....+++.+.++++..++.
T Consensus       318 n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l  395 (677)
T KOG1915|consen  318 N-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL  395 (677)
T ss_pred             C-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            3 557778888888888899999999999999875 455221  1222221     11   2468999999999999884


Q ss_pred             CCCCCHHHHHHHHHHH----HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCC
Q 009143          396 SVVPEPHIWNVIIDGY----GRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRG  471 (542)
Q Consensus       396 ~~~~~~~~~~~li~~~----~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g  471 (542)
                       ++....||..+--.|    .++.+...|.+++...+  |..|-..+|...|..     -.+.++++.+.+++++.++.+
T Consensus       396 -IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIel-----ElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  396 -IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIEL-----ELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             -cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHH-----HHHHhhHHHHHHHHHHHHhcC
Confidence             333555665554444    46889999999998877  468888888888875     667899999999999999975


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcC-CCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcCC
Q 009143          472 ITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLG-LAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRNK  542 (542)
Q Consensus       472 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~k  542 (542)
                      . -|..+|......-...|+.+.|..+|+-..+.. .......|.+.++--...|.+++|..+|++.|+..+
T Consensus       468 P-e~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~  538 (677)
T KOG1915|consen  468 P-ENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQ  538 (677)
T ss_pred             h-HhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcc
Confidence            3 366889888888888999999999999988752 333456678888888899999999999999998753

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.70  E-value=1.8e-13  Score=132.94  Aligned_cols=292  Identities=11%  Similarity=0.069  Sum_probs=162.5

Q ss_pred             cCChhhHHHHHHHHHHCCCCCChH-HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH
Q 009143          201 VNELDKALHLFSTMANNGIRPNRV-THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ  279 (542)
Q Consensus       201 ~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  279 (542)
                      .|++++|.+.+....+..  +++. .|.....+..+.|+++.|.+.+.++.+..+ .  ............+...|+++.
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 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELAD-N--DQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-c--chHHHHHHHHHHHHHCCCHHH
Confidence            466666665555544321  1222 222223333556666666666666655432 1  111121222445555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          280 ALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       280 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      |...++++.+.. |-++..+..+...|.+.|++++|.+++..+.+.+..+ ......+-.                    
T Consensus       172 Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~-~~~~~~l~~--------------------  229 (398)
T PRK10747        172 ARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGD-EEHRAMLEQ--------------------  229 (398)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCC-HHHHHHHHH--------------------
Confidence            555555555544 3445555555555555555555555555555543221 111110000                    


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 009143          360 TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTF  439 (542)
Q Consensus       360 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  439 (542)
                             .+|..++.......+.+...++++.+.+.- +.++.....+...+...|+.++|.+++++..+.  .|+....
T Consensus       230 -------~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~  299 (398)
T PRK10747        230 -------QAWIGLMDQAMADQGSEGLKRWWKNQSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV  299 (398)
T ss_pred             -------HHHHHHHHHHHHhcCHHHHHHHHHhCCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH
Confidence                   011222222222333444455555543322 236667777777777788888888777777763  3343211


Q ss_pred             HHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHH
Q 009143          440 NALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKK  519 (542)
Q Consensus       440 ~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~  519 (542)
                      .  +.+     ....++.+++++..++..+.. +-|+..+..+...+.+.|++++|.+.|+++.+.  .|+...+..+..
T Consensus       300 ~--l~~-----~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~  369 (398)
T PRK10747        300 L--LIP-----RLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLAD  369 (398)
T ss_pred             H--HHh-----hccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHH
Confidence            1  111     334477888888888777652 234556777888888888888888888888775  577777778888


Q ss_pred             HHHhcCChhHHHHHHHHHhh
Q 009143          520 RYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       520 ~~~~~g~~~~A~~~~~~~l~  539 (542)
                      .+.+.|+.++|.++|++.+.
T Consensus       370 ~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        370 ALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHcCCHHHHHHHHHHHHh
Confidence            88888888888888888754

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

Probab=99.70  E-value=1.2e-12  Score=129.32  Aligned_cols=189  Identities=14%  Similarity=0.115  Sum_probs=87.2

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHH
Q 009143          130 LGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALH  209 (542)
Q Consensus       130 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  209 (542)
                      -.|++++|..++.+.++.. +.+...|.+|...|-+.|+.+++...+-......|+ |...|..+.....+.|.+++|.-
T Consensus       151 arg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccHHHHHH
Confidence            3355555555555555442 224445555555555555555555544444433332 34555555555555555555555


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHH----HHHHHHHHHHhcCCHHHHHHHHH
Q 009143          210 LFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVI----TSTILMDSYFKNGDKFQALALWN  285 (542)
Q Consensus       210 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~  285 (542)
                      .|.+..+.. +++...+-.-...|-+.|+...|..-|.++....+ .  .+..    .--..++.+...++.+.|.+.++
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p-~--~d~er~~d~i~~~~~~~~~~~~~e~a~~~le  304 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP-P--VDIERIEDLIRRVAHYFITHNERERAAKALE  304 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC-c--hhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            555555442 22333333344445555555555555555554433 1  1111    11122333444444455555554


Q ss_pred             HHHHC-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          286 DMFQK-NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       286 ~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      ..... +-..+...++.++..+.+...++.|......+..
T Consensus       305 ~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~  344 (895)
T KOG2076|consen  305 GALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRN  344 (895)
T ss_pred             HHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhc
Confidence            44431 1123334445555555555555555555444443

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

Probab=99.70  E-value=1e-13  Score=126.11  Aligned_cols=214  Identities=18%  Similarity=0.180  Sum_probs=161.8

Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 009143          308 LNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKARE  387 (542)
Q Consensus       308 ~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  387 (542)
                      ..|++++|.+.|++.+.....-....|+ +.-.+-..|++++|++.|-++... +..+..+...+...|-...+..+|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            3688999999999988763222222233 334567889999999998776553 23467788888888999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHH
Q 009143          388 FLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEM  467 (542)
Q Consensus       388 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~  467 (542)
                      ++.+.... ++.|+.....|...|-+.|+-.+|++.+-+--+  ..|......-.+.+|    |....-+++++.+|++.
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ay----yidtqf~ekai~y~eka  652 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAY----YIDTQFSEKAINYFEKA  652 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHH----HHhhHHHHHHHHHHHHH
Confidence            99888765 344899999999999999999999988665444  344433333344443    66778899999999987


Q ss_pred             HhCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHH
Q 009143          468 LRRGITPDIITYTELIKGHC-ARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIH  534 (542)
Q Consensus       468 ~~~g~~p~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~  534 (542)
                      .-  +.|+..-|..|+..|. +.|++++|.++++..... ++-|.....-|++.+...|.. ++.++-
T Consensus       653 al--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~-d~key~  716 (840)
T KOG2003|consen  653 AL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLK-DAKEYA  716 (840)
T ss_pred             Hh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccch-hHHHHH
Confidence            65  5899999998887665 589999999999998875 566888888888888777753 334433

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

Probab=99.67  E-value=5.1e-13  Score=121.64  Aligned_cols=359  Identities=15%  Similarity=0.109  Sum_probs=238.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC------------CC
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPS------------PN  187 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~------------~~  187 (542)
                      ..+.+...+.+.|+++.|+..|+...+.  .|+..+-..|+-++...|+-++..+.|..|......            |+
T Consensus       278 il~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~  355 (840)
T KOG2003|consen  278 ILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPD  355 (840)
T ss_pred             HHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcc
Confidence            5566666777888888888888887764  577766666666666678888888888877653211            22


Q ss_pred             HHhHHHHH-----HHHHHcCC--hhhHHHHHHHHHHCCCCCCh---------------------HHHHHHHHHHHhcCCh
Q 009143          188 CATYNAFI-----TGYCRVNE--LDKALHLFSTMANNGIRPNR---------------------VTHNILVHALCKKGLL  239 (542)
Q Consensus       188 ~~~~~~li-----~~~~~~g~--~~~A~~~~~~m~~~g~~p~~---------------------~~~~~l~~~~~~~g~~  239 (542)
                      ....+..|     .-.-+.++  .++++-.--++..--+.|+-                     ..-..-...+.+.|++
T Consensus       356 ~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~  435 (840)
T KOG2003|consen  356 DNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDI  435 (840)
T ss_pred             hHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCH
Confidence            22222211     11111111  11111111111111111110                     0001123345566666


Q ss_pred             hHHHHHHHHHHhCCCCCCC---------------------------------CcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          240 GDAVKFLGEVLADDDGKAT---------------------------------SDVITSTILMDSYFKNGDKFQALALWND  286 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~---------------------------------~~~~~~~~l~~~~~~~g~~~~a~~~~~~  286 (542)
                      +.|.++++-..+.+.....                                 -+..+...-.+.....|++++|.+.+++
T Consensus       436 ~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  436 EGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            6666666555444331100                                 1222222222333446889999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 009143          287 MFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQ  366 (542)
Q Consensus       287 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  366 (542)
                      .+..+-. -+..+..+.-.+-..|+.++|++.|-++..- +..+......+.+.|-...+..+|++++...... ++.|+
T Consensus       516 al~ndas-c~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp  592 (840)
T KOG2003|consen  516 ALNNDAS-CTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDP  592 (840)
T ss_pred             HHcCchH-HHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCH
Confidence            9865421 1222222333567789999999999887543 3447788888999999999999999999877654 67788


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHh
Q 009143          367 ISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAE  446 (542)
Q Consensus       367 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  446 (542)
                      .+..-|.+.|-+.|+-.+|.+.+-+--.- .+.+..+..-|..-|....-+++++..|++..-  +.|+..-|-.++..|
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc  669 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASC  669 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHH
Confidence            99999999999999999999887665443 345888888899999999999999999998765  689999999999987


Q ss_pred             hcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 009143          447 TRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGN  491 (542)
Q Consensus       447 ~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  491 (542)
                          +-+.|++++|.++++...+. ++-|..+..-|++.+...|.
T Consensus       670 ----~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  670 ----FRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             ----HHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence                56789999999999998875 45678888888888877664

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

Probab=99.67  E-value=1.7e-11  Score=116.92  Aligned_cols=394  Identities=14%  Similarity=0.037  Sum_probs=307.2

Q ss_pred             CCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH
Q 009143          111 RCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVP--DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNC  188 (542)
Q Consensus       111 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  188 (542)
                      ..|+.-|...|..=...+-+.|.+-.+..+....+..|+.-  -..+|..-.+.|.+.+-++-|..+|...++..| -+.
T Consensus       472 ~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp-~k~  550 (913)
T KOG0495|consen  472 ANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFP-CKK  550 (913)
T ss_pred             hcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhcc-chh
Confidence            45778888888888888888899988888888888877653  246788888999999999999999999888665 366


Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      ..|......--..|..++...+|++.... ++-....|......+-..|++..|..++..+.+..+    .+...|..-+
T Consensus       551 slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p----nseeiwlaav  625 (913)
T KOG0495|consen  551 SLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP----NSEEIWLAAV  625 (913)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC----CcHHHHHHHH
Confidence            77887777777779999999999999876 344556677777888889999999999999999887    7888999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCH
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD-VITYNTLLNCLCKQGKL  347 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~  347 (542)
                      ........++.|..+|.+....  .|+...|..-+..--..++.++|++++++..+.  -|+ ...|..+...+-+.++.
T Consensus       626 Kle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~i  701 (913)
T KOG0495|consen  626 KLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENI  701 (913)
T ss_pred             HHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHH
Confidence            9999999999999999998875  578888888888878889999999999998886  455 45677777888889999


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 009143          348 DEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLM  427 (542)
Q Consensus       348 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  427 (542)
                      +.|...|..-.+. ++-....|..+...--+.|.+-+|..++++..-+++. +...|-..|..-.+.|+.+.|..+..+.
T Consensus       702 e~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakA  779 (913)
T KOG0495|consen  702 EMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKA  779 (913)
T ss_pred             HHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999888765553 4445566777777777888999999999999988876 8899999999999999999998887776


Q ss_pred             HhCCCCCCHHHHHHHHHH----------------hh---------cccccccCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 009143          428 LSFGVSSNVFTFNALILA----------------ET---------RGASCNLGHIHLALQLYDEMLRRGITPDIITYTEL  482 (542)
Q Consensus       428 ~~~~~~p~~~~~~~ll~~----------------~~---------~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  482 (542)
                      ++. ++-+...|..-|..                |-         ...+....+++.|.+.|.+.++.+ +.+..+|..+
T Consensus       780 LQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~f  857 (913)
T KOG0495|consen  780 LQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWF  857 (913)
T ss_pred             HHh-CCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHH
Confidence            653 11111111111110                00         011455678999999999999863 2244789889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHH
Q 009143          483 IKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKK  519 (542)
Q Consensus       483 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~  519 (542)
                      ...+.++|.-++-.+++.+.....+. -...|.++-.
T Consensus       858 ykfel~hG~eed~kev~~~c~~~EP~-hG~~W~avSK  893 (913)
T KOG0495|consen  858 YKFELRHGTEEDQKEVLKKCETAEPT-HGELWQAVSK  893 (913)
T ss_pred             HHHHHHhCCHHHHHHHHHHHhccCCC-CCcHHHHHhh
Confidence            99999999999999999888775322 2344544433

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

Probab=99.67  E-value=3.4e-12  Score=126.12  Aligned_cols=327  Identities=14%  Similarity=0.101  Sum_probs=224.2

Q ss_pred             HhhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHH
Q 009143           95 KENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADH  174 (542)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  174 (542)
                      .++.+.+..+...+..  ..+.+...|.+|...|-+.|+.+++...+-...... +-|...|..+.....+.|.+++|.-
T Consensus       152 rg~~eeA~~i~~EvIk--qdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIK--QDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             hCCHHHHHHHHHHHHH--hCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHH
Confidence            4566777776655431  234567789999999999999999887765555442 3356788888888888999999999


Q ss_pred             HHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh----HHHHHHHHHHHhcCChhHHHHHHHHHH
Q 009143          175 VIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR----VTHNILVHALCKKGLLGDAVKFLGEVL  250 (542)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~  250 (542)
                      .|.++.+..| ++...+---+..|-+.|+...|.+-|.++.....+.|.    .+.-..++.+...++.+.|.+.+....
T Consensus       229 cy~rAI~~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  229 CYSRAIQANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHhcCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999988776 35555555677788889999999999998876322222    222334666777888888999998888


Q ss_pred             hCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH--------------------------HHHHH
Q 009143          251 ADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAY--------------------------NVLIN  304 (542)
Q Consensus       251 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--------------------------~~li~  304 (542)
                      ..+...  .+...++.++..+.+...++.|......+......+|..-|                          -.++-
T Consensus       308 s~~~~~--~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  308 SKEKDE--ASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             hhcccc--ccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence            854433  66778888999999999999998888887762222222111                          11222


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 009143          305 GFCLNGDISSAFAYFCQMLKRGF--LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDI  382 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  382 (542)
                      ++...+..+....+..-..+...  .-++..|..+..+|...|++.+|+.+|..+......-+..+|-.+..+|...|.+
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            33333444444444444444442  2345567777778888888888888888777765445566777777777778888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 009143          383 VKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLML  428 (542)
Q Consensus       383 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (542)
                      ++|.+.+..++...+. +...--.|...+.+.|+.++|.+.+..+.
T Consensus       466 e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  466 EEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            8888888887776543 45555566667777888888887777755

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=6.1e-13  Score=129.34  Aligned_cols=286  Identities=15%  Similarity=0.094  Sum_probs=202.0

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHH
Q 009143          131 GGKIGTALWLRRKMIQKGTVPDVLT-HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALH  209 (542)
Q Consensus       131 ~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  209 (542)
                      .|+++.|.+.+....+..  +++.. +........+.|+++.|.+.+.++.+..+.+.....-.....+...|++++|.+
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            588888887777665542  12232 333344447788888888888888775443322222233667778888888888


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH------HHHHHHHHHHHhcCCHHHHHHH
Q 009143          210 LFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDV------ITSTILMDSYFKNGDKFQALAL  283 (542)
Q Consensus       210 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~  283 (542)
                      .++++.+.. +-+...+..+...|.+.|++++|.+++..+.+.....  +..      .+|..++.......+.+...++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~--~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGD--EEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCC--HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            888887764 3356777778888888888888888888888776521  221      2455555555566667777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 009143          284 WNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA  363 (542)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  363 (542)
                      |+.+.+.- +.++.....+...+...|+.++|.+.+++..+.  .|+....  ++.+....++.+++.+..+...+.. +
T Consensus       252 w~~lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P  325 (398)
T PRK10747        252 WKNQSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-G  325 (398)
T ss_pred             HHhCCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-C
Confidence            77775442 557778888888888888888888888888774  4554222  2333445588888888888887763 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      -|...+..+...+.+.+++++|.+.|+.+.+.  .|+...+..+...+.+.|+.++|.+++++...
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45666778888888888899999888888875  47778888888888888999998888887754

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

Probab=99.66  E-value=9.8e-16  Score=142.33  Aligned_cols=262  Identities=19%  Similarity=0.131  Sum_probs=84.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHc
Q 009143          123 AVIRDLCLGGKIGTALWLRRKMIQKG-TVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRV  201 (542)
Q Consensus       123 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  201 (542)
                      .+...+.+.|++++|+++++...... .+.+...|..+.......++++.|.+.++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            44666677777777777775544432 1234444555556666677777777777777665543 45556666665 567


Q ss_pred             CChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 009143          202 NELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQAL  281 (542)
Q Consensus       202 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  281 (542)
                      +++++|.++++..-+.  .++...+..++..+.+.++++++.++++.+.....  .+.+...|..+...+.+.|+.++|+
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~a~~~~~~G~~~~A~  166 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPA--APDSARFWLALAEIYEQLGDPDKAL  166 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T-----T-HHHHHHHHHHHHHCCHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccC--CCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            7777777777665443  24555566666667777777777777777665332  1255666666667777777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          282 ALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      +.+++..+.. |.|......++..+...|+.+++.+++....+.. +.|+..+..+..++...|+.++|..+++...+..
T Consensus       167 ~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  167 RDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            7777766653 3345666666666666677666666666665542 3344555666666666666666666666666542


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          362 VAPDQISYKTIIQGLCIHGDIVKAREFLLSML  393 (542)
Q Consensus       362 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  393 (542)
                       +.|+.+...+.+++...|+.++|.++.+++.
T Consensus       245 -p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  245 -PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             -TT-HHHHHHHHHHHT----------------
T ss_pred             -ccccccccccccccccccccccccccccccc
Confidence             3356666666666666666666666665544

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

Probab=99.65  E-value=1.2e-12  Score=114.29  Aligned_cols=292  Identities=17%  Similarity=0.170  Sum_probs=215.9

Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ  279 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  279 (542)
                      -+++.++|.++|-+|.+.. +.+..+-.+|.+.|-+.|..|.|+++++.+.++.......-..+...|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3577888888888887742 224455667888888889999999998888876543322334566778888899999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          280 ALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV----ITYNTLLNCLCKQGKLDEASHFYG  355 (542)
Q Consensus       280 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~  355 (542)
                      |+.+|..+.+.+ ..-......|+..|-...+|++|++.-+++.+.+-.+..    ..|.-+...+....+.+.|..++.
T Consensus       126 AE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            999999988765 456677888899999999999999999988877544432    345566666667788999999999


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          356 VLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN  435 (542)
Q Consensus       356 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (542)
                      +..+.+ +..+..-..+.+.+...|+++.|.+.++.+.+.++.--+.+...|..+|.+.|+.++....+.++.+....++
T Consensus       205 kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~  283 (389)
T COG2956         205 KALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD  283 (389)
T ss_pred             HHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence            888864 2345555666778888999999999999999987666667888999999999999999999999888543343


Q ss_pred             H--HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHhHc
Q 009143          436 V--FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCA---RGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       436 ~--~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~  505 (542)
                      .  ..+..+.         .....+.|...+.+-+..  +|+...+.-+++.-..   .|...+-..+++.|...
T Consensus       284 ~~l~l~~lie---------~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         284 AELMLADLIE---------LQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHHHHH---------HhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            3  2222222         224456666666555554  7899888888886654   45567777777777653

>TIGR00540 hemY_coli hemY protein

Probab=99.64  E-value=1.9e-12  Score=126.57  Aligned_cols=188  Identities=12%  Similarity=0.048  Sum_probs=99.6

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh--HHHHHHHHHHHhcCChhHH
Q 009143          165 KIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR--VTHNILVHALCKKGLLGDA  242 (542)
Q Consensus       165 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~g~~~~a  242 (542)
                      ..|+++.|.+.+.+..+..+.| ...+-....++.+.|+++.|.+.+.+..+..  |+.  .........+...|+++.|
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~-~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEP-VLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            3566777766666665543321 2333344455666677777777776665432  332  2333345666667777777


Q ss_pred             HHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHH---HHhCCCHHHHHHH
Q 009143          243 VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYN-VLING---FCLNGDISSAFAY  318 (542)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~---~~~~~~~~~A~~~  318 (542)
                      .+.++.+.+..|    .+..+...+...+...|++++|.+.+..+.+.++. +...+. .-..+   ....+..+++.+.
T Consensus       173 l~~l~~l~~~~P----~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~  247 (409)
T TIGR00540       173 RHGVDKLLEMAP----RHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDG  247 (409)
T ss_pred             HHHHHHHHHhCC----CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHH
Confidence            777777776665    55566667777777777777777777777766532 222221 11111   1112222222233


Q ss_pred             HHHHHHcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          319 FCQMLKRGF---LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       319 ~~~~~~~~~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      +..+.+...   +.+...+..+...+...|+.++|.+++++..+.
T Consensus       248 L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~  292 (409)
T TIGR00540       248 LLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK  292 (409)
T ss_pred             HHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh
Confidence            333333211   124455555555566666666666666555553

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.

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

Probab=99.63  E-value=2.9e-15  Score=139.12  Aligned_cols=262  Identities=19%  Similarity=0.197  Sum_probs=102.6

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhCC-CCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 009143          158 YLVNELCKIGDLEKADHVIREMSEMR-PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKK  236 (542)
Q Consensus       158 ~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  236 (542)
                      .+...+.+.|++++|.+++++..... +..+...|..+.......+++++|.+.++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            55777788888888888886544433 3345566666666777788888888888888776432 45566666666 688


Q ss_pred             CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          237 GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN-IQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       237 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      +++++|.+++.+..+..     ++...+..++..+...++++++.++++.+.... .+.+...|..+...+.+.|+.++|
T Consensus        91 ~~~~~A~~~~~~~~~~~-----~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD-----GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             ccccccccccccccccc-----cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            88888888887765533     445566777788888888888888888876532 345677788888888888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          316 FAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      ++.+++..+.. +.|......++..+...|+.+++..++....+.. +.|+..+..+..+|...|+.++|...+++..+.
T Consensus       166 ~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~  243 (280)
T PF13429_consen  166 LRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL  243 (280)
T ss_dssp             HHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc
Confidence            88888888873 2246677778888888888888888887776653 445666777888888888888888888888876


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          396 SVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       396 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      .+. |+.....+.+++.+.|+.++|.++.++..+
T Consensus       244 ~p~-d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  244 NPD-DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             STT--HHHHHHHHHHHT-----------------
T ss_pred             ccc-cccccccccccccccccccccccccccccc
Confidence            544 788888888888888888888888776543

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

Probab=99.62  E-value=3.7e-11  Score=110.89  Aligned_cols=395  Identities=13%  Similarity=0.075  Sum_probs=252.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD-VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      +-+..+-|.++|++++|++.|.+.++.  .|+ +.-|.....+|...|+++++.+--...++.+|. -+..+..-..++-
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~-Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPD-YVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcH-HHHHHHHHHHHHH
Confidence            445667788999999999999999985  677 778889999999999999999988888885542 3445666667777


Q ss_pred             HcCChhhHHHHHHHHHH-CCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHh-CCCCCCCCcHHHHHHHHHHHHh----
Q 009143          200 RVNELDKALHLFSTMAN-NGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLA-DDDGKATSDVITSTILMDSYFK----  273 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~----  273 (542)
                      ..|++++|+.=..-.-- .|+. |..+-..+=+.+-+     .|.+..++-.+ .++ +.-|......+....+..    
T Consensus       195 ~lg~~~eal~D~tv~ci~~~F~-n~s~~~~~eR~Lkk-----~a~~ka~e~~k~nr~-p~lPS~~fi~syf~sF~~~~~~  267 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVLCILEGFQ-NASIEPMAERVLKK-----QAMKKAKEKLKENRP-PVLPSATFIASYFGSFHADPKP  267 (606)
T ss_pred             hhccHHHHHHhhhHHHHhhhcc-cchhHHHHHHHHHH-----HHHHHHHHhhcccCC-CCCCcHHHHHHHHhhccccccc
Confidence            78888877643322211 1121 22111111111111     12222222222 121 222333222222222211    


Q ss_pred             ---------------------cC---CHHHHHHHHHHHHHC---CCCCC---------HHHHHHHHHHHHhCCCHHHHHH
Q 009143          274 ---------------------NG---DKFQALALWNDMFQK---NIQTD---------IVAYNVLINGFCLNGDISSAFA  317 (542)
Q Consensus       274 ---------------------~g---~~~~a~~~~~~~~~~---~~~~~---------~~~~~~li~~~~~~~~~~~A~~  317 (542)
                                           .+   .+..|...+.+-...   ....+         ..+.......+.-.|+.-.|.+
T Consensus       268 ~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~  347 (606)
T KOG0547|consen  268 LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQE  347 (606)
T ss_pred             cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhh
Confidence                                 01   122222222221110   00111         1222222223445678888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 009143          318 YFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSV  397 (542)
Q Consensus       318 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  397 (542)
                      -|+..+.....+ ...|..+...|....+.++..+.|+.....+ +-++.+|..-.+.+.-.+++++|..-|++.+..++
T Consensus       348 d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p  425 (606)
T KOG0547|consen  348 DFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP  425 (606)
T ss_pred             hHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh
Confidence            888888874332 2337777788889999999999999888865 34677888888888888999999999999988776


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCC-
Q 009143          398 VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF-GVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPD-  475 (542)
Q Consensus       398 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~-  475 (542)
                      . +...|-.+..+.-+.+++++++..|++.++. .-.|...+|..-+       +...++++.|.+.|+..++.  .|+ 
T Consensus       426 e-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAei-------LtDqqqFd~A~k~YD~ai~L--E~~~  495 (606)
T KOG0547|consen  426 E-NAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEI-------LTDQQQFDKAVKQYDKAIEL--EPRE  495 (606)
T ss_pred             h-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHH-------HhhHHhHHHHHHHHHHHHhh--cccc
Confidence            5 6777877877888888999999999998873 2234444444433       56789999999999988874  332 


Q ss_pred             ------HHHH--HHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          476 ------IITY--TELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       476 ------~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                            +..+  -.++-.- =.+++..|..++.+..+...+ ....|..|...-..+|+.++|+++|++...
T Consensus       496 ~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  496 HLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                  2222  1111111 248899999999999887544 556788899999999999999999998753

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

Probab=99.60  E-value=8.4e-11  Score=107.89  Aligned_cols=162  Identities=13%  Similarity=0.053  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009143          332 ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGY  411 (542)
Q Consensus       332 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  411 (542)
                      .|...+.+-|.-.++.++|...|+...+.+. .....|+.+.+-|....+...|.+-++++++-++. |-..|-.|.++|
T Consensus       331 ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaY  408 (559)
T KOG1155|consen  331 ETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAY  408 (559)
T ss_pred             cceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHH
Confidence            3444444555555555555555555555331 12334444555555555555555555555554433 555555555555


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009143          412 GRCGDLSNAFSIRDLMLSFGVSS-NVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARG  490 (542)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  490 (542)
                      .-.+...=|+-.|++..+  ++| |...|.++-.+     |.+.+++++|++.|.+....|- .+...|..|.+.|-+.+
T Consensus       409 eim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~C-----Y~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~  480 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALE--LKPNDSRLWVALGEC-----YEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELK  480 (559)
T ss_pred             HHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHH-----HHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHH
Confidence            555555555555555544  233 23344444333     4455555555555555555432 24455555555555555


Q ss_pred             CHHHHHHHHHHHh
Q 009143          491 NMKEAEEVFAKIQ  503 (542)
Q Consensus       491 ~~~~A~~~~~~m~  503 (542)
                      +.++|...+++..
T Consensus       481 d~~eAa~~yek~v  493 (559)
T KOG1155|consen  481 DLNEAAQYYEKYV  493 (559)
T ss_pred             hHHHHHHHHHHHH
Confidence            5555555555443

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

Probab=99.60  E-value=9.7e-13  Score=125.96  Aligned_cols=285  Identities=13%  Similarity=0.070  Sum_probs=170.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC--CCHHhHHHHHHHHHHcCChhhHHHH
Q 009143          133 KIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPS--PNCATYNAFITGYCRVNELDKALHL  210 (542)
Q Consensus       133 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~  210 (542)
                      +..+|+..|..+.+. ..-+.+....+..+|...+++++|.++|+.+.+..|-  .+..+|.+.+.-+-+.    -++.+
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            345666666664433 3334455566677777777777777777777654331  2455565555433221    11122


Q ss_pred             H-HHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          211 F-STMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       211 ~-~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      + +.+.+. -+-.+.+|..+.+.|.-+++.+.|++.|++.+..++    ....+|+.+..-+.....+|.|...|+..+.
T Consensus       409 Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp----~faYayTLlGhE~~~~ee~d~a~~~fr~Al~  483 (638)
T KOG1126|consen  409 LAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDP----RFAYAYTLLGHESIATEEFDKAMKSFRKALG  483 (638)
T ss_pred             HHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCC----ccchhhhhcCChhhhhHHHHhHHHHHHhhhc
Confidence            1 222222 123456777777777777777777777777777665    5667777777777777777777777777664


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 009143          290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISY  369 (542)
Q Consensus       290 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  369 (542)
                      .. +.+-..|.-|.-.|.+.++++.|+-.|+++.+-+ +-+.+....+...+.+.|+.|+|++++++...... .|+..-
T Consensus       484 ~~-~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~  560 (638)
T KOG1126|consen  484 VD-PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCK  560 (638)
T ss_pred             CC-chhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhH
Confidence            32 2223334445556777777777777777766653 22445555566666677777777777777666542 233333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 009143          370 KTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFG  431 (542)
Q Consensus       370 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (542)
                      -..+..+...+++++|+..++++++.-+. +...|-.+...|.+.|+.+.|+.-|.-+.+..
T Consensus       561 ~~~~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  561 YHRASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            34445555567777777777777665433 55566666677777777777777666666543

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

Probab=99.59  E-value=9.1e-12  Score=114.08  Aligned_cols=256  Identities=15%  Similarity=0.135  Sum_probs=135.4

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC--CCHHhHHHHHHHHHHcCChh
Q 009143          128 LCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPS--PNCATYNAFITGYCRVNELD  205 (542)
Q Consensus       128 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~  205 (542)
                      +....+.+++++=.+.+.+.|++.+...-+....+.-...++|.|+.+|+++.+..|-  .|..+|..++-.-..  +- 
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~--~s-  313 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKND--KS-  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhh--hH-
Confidence            3333455555555555555555444444444444444555666666666666554321  133444444332111  11 


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWN  285 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  285 (542)
                       .+..+.+-.-.=-+-.+.|...+.+-|.-.++.++|...|+..++.++    ....+|+.+..-|....+...|..-++
T Consensus       314 -kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp----~~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  314 -KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP----KYLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             -HHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc----chhHHHHHhhHHHHHhcccHHHHHHHH
Confidence             111111110000112334555555555566666666666666666555    555566666666666666666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 009143          286 DMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPD  365 (542)
Q Consensus       286 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  365 (542)
                      ..++.. |.|-..|..|.++|.-.+...=|+-.|++..... +.|...|.+|..+|.+.++.++|++-|......| ..+
T Consensus       389 rAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte  465 (559)
T KOG1155|consen  389 RAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTE  465 (559)
T ss_pred             HHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccc
Confidence            666554 5556666666666666666666666666665542 3355566666666666666666666666665544 224


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 009143          366 QISYKTIIQGLCIHGDIVKAREFLLSMLE  394 (542)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~  394 (542)
                      ...+..|.+.|-+.++.++|...+.+-++
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            45566666666666666666655555443

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

Probab=99.58  E-value=3.5e-11  Score=108.69  Aligned_cols=192  Identities=14%  Similarity=0.139  Sum_probs=130.9

Q ss_pred             cCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHH
Q 009143          201 VNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQA  280 (542)
Q Consensus       201 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  280 (542)
                      .|+|.+|+++..+-.+.+-. ....|..-+.+.-+.|+.+.+-+++.++-+..+ .  ++..+.-+........|+++.|
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~-~--~~l~v~ltrarlll~~~d~~aA  172 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAG-D--DTLAVELTRARLLLNRRDYPAA  172 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCC-C--chHHHHHHHHHHHHhCCCchhH
Confidence            58999999998888777643 345566677777888899999999988887633 3  6777888888888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHH
Q 009143          281 LALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV-------ITYNTLLNCLCKQGKLDEASHF  353 (542)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~-------~~~~~li~~~~~~g~~~~A~~~  353 (542)
                      ..-.+++.+.+ +.++........+|.+.|++.+...++..+.+.|.-.+.       .+|..+++-....+..+.-...
T Consensus       173 ~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~  251 (400)
T COG3071         173 RENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTW  251 (400)
T ss_pred             HHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHH
Confidence            88888888876 667788888888888888888888888888888755443       2344444444333444443344


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 009143          354 YGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV  398 (542)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  398 (542)
                      |+..... .+.++..-..++.-+.+.|+.++|.++.++.++++..
T Consensus       252 W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D  295 (400)
T COG3071         252 WKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWD  295 (400)
T ss_pred             HHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccC
Confidence            4443322 2333444445555555555555555555555555443

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

Probab=99.57  E-value=4.1e-11  Score=108.21  Aligned_cols=286  Identities=15%  Similarity=0.081  Sum_probs=185.5

Q ss_pred             cCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHH
Q 009143          166 IGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKF  245 (542)
Q Consensus       166 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~  245 (542)
                      .|++..|+++..+-.+.+..| ...|..-+.+.-+.|+.+.+-.++.+..+.--.++...+.+..+.....|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            477888877777776666543 4455556666677778888877777776653344556666677777777888888877


Q ss_pred             HHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhCCCHHHHHHH
Q 009143          246 LGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDI-------VAYNVLINGFCLNGDISSAFAY  318 (542)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~A~~~  318 (542)
                      +.++.+..+    .+..+.....++|.+.|++.+...++..+.+.+.-.+.       .+|..+++-....+..+.-...
T Consensus       176 v~~ll~~~p----r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~  251 (400)
T COG3071         176 VDQLLEMTP----RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTW  251 (400)
T ss_pred             HHHHHHhCc----CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHH
Confidence            777777766    66777777778888888888888888888777655443       3455566655555555555555


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 009143          319 FCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV  398 (542)
Q Consensus       319 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  398 (542)
                      +++..++ .+.++..-..++.-+.+.|+.++|.++..+..+.+..|+.   . ..-...+-++...-++..++-.+..+.
T Consensus       252 W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L---~-~~~~~l~~~d~~~l~k~~e~~l~~h~~  326 (400)
T COG3071         252 WKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL---C-RLIPRLRPGDPEPLIKAAEKWLKQHPE  326 (400)
T ss_pred             HHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH---H-HHHhhcCCCCchHHHHHHHHHHHhCCC
Confidence            5555443 3445666667777777788888888877777776655541   1 112234456666656666555554333


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh
Q 009143          399 PEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR  469 (542)
Q Consensus       399 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~  469 (542)
                       ++..+.+|...|.+.+.|.+|...|+...+  ..|+..+|+.+-.+     +.+.|+.++|.++.++...
T Consensus       327 -~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~-----~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         327 -DPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADA-----LDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             -ChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHH-----HHHcCChHHHHHHHHHHHH
Confidence             556677777777777777777777776555  34555666555555     4555666666666655543

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

Probab=99.56  E-value=8.4e-10  Score=101.68  Aligned_cols=410  Identities=10%  Similarity=0.056  Sum_probs=308.4

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .+...|-.....=..++++..|..+|++.+... ..+...|...+..=.++..+..|..++++....-|..| ..|--.+
T Consensus        71 ~~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~  148 (677)
T KOG1915|consen   71 LNMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYI  148 (677)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHH
Confidence            355567777777778899999999999999865 34777888888988999999999999999987655433 3455556


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..=-..|++..|.++|++-.+  ..|+...|.+.++.-.+-+.++.|..+++..+-..     |++..|.....--.+.|
T Consensus       149 ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~H-----P~v~~wikyarFE~k~g  221 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVH-----PKVSNWIKYARFEEKHG  221 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheec-----ccHHHHHHHHHHHHhcC
Confidence            666678999999999999887  47999999999999999999999999999988644     88999999999999999


Q ss_pred             CHHHHHHHHHHHHHC-C-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHH
Q 009143          276 DKFQALALWNDMFQK-N-IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD--VITYNTLLNCLCKQGKLDEAS  351 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~-~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~  351 (542)
                      +...|..+|+...+. | -..+...+.+....-.++..++.|.-+|+-.++. ++.+  ...|.....-=-+-|+.....
T Consensus       222 ~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIE  300 (677)
T KOG1915|consen  222 NVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIE  300 (677)
T ss_pred             cHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhH
Confidence            999999999988764 1 0122334555555555677889999999988876 2222  233433333333345443333


Q ss_pred             HH--------HHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHH--------HHHhc
Q 009143          352 HF--------YGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEP-HIWNVIID--------GYGRC  414 (542)
Q Consensus       352 ~~--------~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~--------~~~~~  414 (542)
                      ..        ++.+.+.+ +-|-.+|-..+..-...|+.+...+++++.+..-++... ..|...|-        .-...
T Consensus       301 d~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~  379 (677)
T KOG1915|consen  301 DAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEA  379 (677)
T ss_pred             HHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            22        34444443 456777878888888889999999999999875332221 11222221        12356


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 009143          415 GDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKE  494 (542)
Q Consensus       415 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  494 (542)
                      .+.+.+.++|+..++. ++-...||..+--.++. ...++.++..|.+++...+  |..|...+|...|..-.+.++++.
T Consensus       380 ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~-feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDR  455 (677)
T KOG1915|consen  380 EDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQ-FEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDR  455 (677)
T ss_pred             hhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHH-HHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHH
Confidence            8999999999999883 33445666655444332 2456789999999998877  458999999999999999999999


Q ss_pred             HHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          495 AEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       495 A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      ...++++..+.++. +..+|......-...|+.+.|..+|+-+++..
T Consensus       456 cRkLYEkfle~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp  501 (677)
T KOG1915|consen  456 CRKLYEKFLEFSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQP  501 (677)
T ss_pred             HHHHHHHHHhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCc
Confidence            99999999997653 77889888888889999999999999887653

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

Probab=99.55  E-value=2.9e-12  Score=122.78  Aligned_cols=286  Identities=16%  Similarity=0.074  Sum_probs=150.5

Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHH-
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA-  282 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~-  282 (542)
                      ..+|...|+.+... +.-+......+.++|...+++++|+++|+.+.+..+ -.-.+...|.+.+--+-+.    -++. 
T Consensus       335 ~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p-~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  335 CREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEP-YRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-ccccchhHHHHHHHHHHhh----HHHHH
Confidence            45666666664433 222334455566666666666666666666666554 2223444555544333221    1111 


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          283 LWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLP-DVITYNTLLNCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      +-+.+.+.. +..+.+|.++.++|.-+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+......
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence            112222222 445566666666666666666666666666654  23 45556555555556666666666666554421


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-
Q 009143          362 VAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFN-  440 (542)
Q Consensus       362 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~-  440 (542)
                       +-+...|.-+.-.|.+.++++.|+-.|+++.+.++. +.+....++..+.+.|+.++|+.+++++.....+-...-|. 
T Consensus       486 -~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  486 -PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             -chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence             011223333444566666666666666666665544 55555556666666666666666666665532221111111 


Q ss_pred             HHHHHhhcccccccCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCC
Q 009143          441 ALILAETRGASCNLGHIHLALQLYDEMLRRGITPD-IITYTELIKGHCARGNMKEAEEVFAKIQTLGLAI  509 (542)
Q Consensus       441 ~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~  509 (542)
                      +.+       +...++.++|+..++++.+.  .|+ ...|..++..|.+.|+.+.|..-|.-|.+...++
T Consensus       564 ~~i-------l~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  564 ASI-------LFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHH-------HHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            111       23346666666666666653  333 3455566666666666666666666665544333

>PRK12370 invasion protein regulator; Provisional

Probab=99.47  E-value=1.1e-10  Score=118.77  Aligned_cols=147  Identities=13%  Similarity=0.034  Sum_probs=62.6

Q ss_pred             hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Q 009143          239 LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAY  318 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  318 (542)
                      +++|...++++++.++    .+..++..+...+...|++++|...+++..+.+ +.+...+..+...+...|++++|+..
T Consensus       320 ~~~A~~~~~~Al~ldP----~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~  394 (553)
T PRK12370        320 MIKAKEHAIKATELDH----NNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQT  394 (553)
T ss_pred             HHHHHHHHHHHHhcCC----CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4444444444444443    444444444444444455555555554444443 33344444444444444555555555


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          319 FCQMLKRGFLPD-VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSM  392 (542)
Q Consensus       319 ~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  392 (542)
                      ++++.+..  |+ ...+..++..+...|++++|...+++..+...+-+...+..+...+...|+.++|...+.++
T Consensus       395 ~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~  467 (553)
T PRK12370        395 INECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEI  467 (553)
T ss_pred             HHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            54444432  21 11112222223334444444444444433221112223333444444444444444444443

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

Probab=99.45  E-value=1.7e-08  Score=91.62  Aligned_cols=307  Identities=13%  Similarity=0.041  Sum_probs=216.3

Q ss_pred             CCChHHHHHHHHHHH--hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 009143          220 RPNRVTHNILVHALC--KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIV  297 (542)
Q Consensus       220 ~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  297 (542)
                      +|+..+....+.+++  -.++...+...+-.+....  ..+.++.....+.+.+...|+.++|...|+.....+ +-+..
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~--~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~  267 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNT--TLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVE  267 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhc--cCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhh
Confidence            333333333444443  3344444444443333322  233888999999999999999999999999988653 22233


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC  377 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  377 (542)
                      ......-.+.+.|+.+....+...+.... .-+...|..-........+++.|+.+-++.++.+ +.+...|-.-...+.
T Consensus       268 ~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~  345 (564)
T KOG1174|consen  268 AMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLI  345 (564)
T ss_pred             hHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHH
Confidence            33333445567888888888887776542 2233344444455566778899999888887754 224455555556778


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH-HHhhcccccccCC
Q 009143          378 IHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALI-LAETRGASCNLGH  456 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll-~~~~~~~~~~~g~  456 (542)
                      ..|++++|.-.|+......+. +...|..|+.+|...|.+.+|.-.-+..... +..+..+...+- ..|    +.....
T Consensus       346 ~~~R~~~A~IaFR~Aq~Lap~-rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~----~~dp~~  419 (564)
T KOG1174|consen  346 ALERHTQAVIAFRTAQMLAPY-RLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVL----FPDPRM  419 (564)
T ss_pred             hccchHHHHHHHHHHHhcchh-hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceee----ccCchh
Confidence            899999999999998876544 7889999999999999999998877665542 233444444431 222    223345


Q ss_pred             hHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHH
Q 009143          457 IHLALQLYDEMLRRGITPDI-ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQ  535 (542)
Q Consensus       457 ~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  535 (542)
                      -++|.+++++....  .|+. ...+.+...+...|+.+.++.++++....  .||....+.|.+.+...+.+.+|++.|.
T Consensus       420 rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~  495 (564)
T KOG1174|consen  420 REKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYY  495 (564)
T ss_pred             HHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            68899999888764  5664 45677788889999999999999998774  5899999999999999999999999999


Q ss_pred             HHhhcC
Q 009143          536 KWLLRN  541 (542)
Q Consensus       536 ~~l~~~  541 (542)
                      .+|..|
T Consensus       496 ~ALr~d  501 (564)
T KOG1174|consen  496 KALRQD  501 (564)
T ss_pred             HHHhcC
Confidence            998765

>PRK12370 invasion protein regulator; Provisional

Probab=99.44  E-value=9e-11  Score=119.30  Aligned_cols=266  Identities=13%  Similarity=0.025  Sum_probs=190.1

Q ss_pred             ChhhHHHHHHHHHH-----cCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHH---------cCChhhHHHHHHHHHHC
Q 009143          152 DVLTHNYLVNELCK-----IGDLEKADHVIREMSEMRPSPNCATYNAFITGYCR---------VNELDKALHLFSTMANN  217 (542)
Q Consensus       152 ~~~~~~~li~~~~~-----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~  217 (542)
                      +...|...+.+...     .+.+++|.+.|++..+..|. +...|..+..++..         .+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            44555555555322     24567999999999987653 56667666655542         24578999999999886


Q ss_pred             CCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 009143          218 GIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIV  297 (542)
Q Consensus       218 g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  297 (542)
                      . +-+..++..+...+...|++++|...++++++.++    .+...+..+...+...|++++|...+++..+.+ +.+..
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P----~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~  407 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSP----ISADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAA  407 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChh
Confidence            4 33677888888899999999999999999999887    778889999999999999999999999999885 33344


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC  377 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  377 (542)
                      .+..++..+...|++++|...++++.+...+-++..+..+..++...|+.++|...+.++.... +.+....+.+...|+
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~  486 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYC  486 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHh
Confidence            4444555677789999999999998876422245557778888899999999999998876642 223344555556667


Q ss_pred             hcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          378 IHGDIVKAREFLLSMLEKSV-VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      ..|  ++|...++.+.+..- .+....+  +-..|.-.|+.+.+... +++.+.
T Consensus       487 ~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        487 QNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             ccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            767  477777777665321 1122222  33444556666666555 776654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.44  E-value=1.1e-10  Score=105.46  Aligned_cols=199  Identities=20%  Similarity=0.168  Sum_probs=119.4

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      ...+..+...+...|++++|...+++.++.. +.+...+..+...+...|++++|.+.+++..+..+ .+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHH
Confidence            4456666677777777777777777776642 22455666666777777777777777777766554 244556666666


Q ss_pred             HHHcCChhhHHHHHHHHHHCCC-CCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          198 YCRVNELDKALHLFSTMANNGI-RPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      +...|++++|.+.+++...... ......+..+...+...|++++|.+.+.+.+...+    .+...+..+...+...|+
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~~~  184 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP----QRPESLLELAELYYLRGQ  184 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----CChHHHHHHHHHHHHcCC
Confidence            7777777777777777665321 11233444555566666666666666666665544    344455556666666666


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      +++|...+++..+.. +.+...+..++..+...|+.++|..+.+.+.
T Consensus       185 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       185 YKDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            666666666555542 3344445555555555566666555555443

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.44  E-value=1.4e-10  Score=104.77  Aligned_cols=200  Identities=19%  Similarity=0.140  Sum_probs=108.2

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHA  232 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  232 (542)
                      ...+..+...+...|++++|.+.+++..+..+ .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            34455566666666666666666666655443 244555556666666666666666666665542 2234455555556


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  312 (542)
                      +...|++++|.+.+.+++......  .....+..+...+...|++++|...+++..+.. +.+...+..+...+...|++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYP--QPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            666666666666666665432111  233444555555555666666666665555443 23344555555555555555


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          313 SSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            5555555555544 12334444444455555555555555544443

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.

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

Probab=99.44  E-value=1.3e-09  Score=102.81  Aligned_cols=288  Identities=15%  Similarity=0.086  Sum_probs=211.1

Q ss_pred             CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 009143          219 IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVA  298 (542)
Q Consensus       219 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  298 (542)
                      ..-+.........-+...+++.+..++.+.+.+.++    +....+..-|.++...|+..+-..+=.++++.- |..+.+
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dp----fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~s  314 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDP----FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALS  314 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCC----CCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcc
Confidence            444566666777777888889999999998888777    666777777778888888888777777777664 667788


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 009143          299 YNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI  378 (542)
Q Consensus       299 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  378 (542)
                      |-++.-.|...|+.++|.+.|.+....+ +.=...|......|.-.|..|+|+..+....+. .+-....+--+.--|.+
T Consensus       315 W~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~  392 (611)
T KOG1173|consen  315 WFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMR  392 (611)
T ss_pred             hhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHH
Confidence            8888888888899999999988876543 112456777888888888888888888776664 11122223334445777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh--CCCCC----CHHHHHHHHHHhhccccc
Q 009143          379 HGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS--FGVSS----NVFTFNALILAETRGASC  452 (542)
Q Consensus       379 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~p----~~~~~~~ll~~~~~~~~~  452 (542)
                      .+..+.|.+.|.+.....+. |+...+-+.-..-..+.+.+|...|+..+.  ..+.+    ...+++.+-++     +.
T Consensus       393 t~n~kLAe~Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~-----~R  466 (611)
T KOG1173|consen  393 TNNLKLAEKFFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHA-----YR  466 (611)
T ss_pred             hccHHHHHHHHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHH-----HH
Confidence            88888999999888877654 788888888877788888999888888763  11112    22334444444     67


Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHH
Q 009143          453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR  522 (542)
Q Consensus       453 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~  522 (542)
                      +.+.+++|+..+++.+... +-+..++.++.-.|...|+++.|.+.|.+....  .|+..+...++..+.
T Consensus       467 kl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~l--~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  467 KLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALAL--KPDNIFISELLKLAI  533 (611)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc--CCccHHHHHHHHHHH
Confidence            7888999999999888753 447788888888888899999999988887664  577766666665443

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

Probab=99.42  E-value=2.7e-08  Score=95.40  Aligned_cols=395  Identities=11%  Similarity=0.134  Sum_probs=216.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCC------CCCCHHhHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR------PSPNCATYNA  193 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~  193 (542)
                      .|.-.+......|-++-++.++++-++.    ++..-.--|..+++.+++++|.+.+..++...      .+.+...|..
T Consensus       140 IW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~e  215 (835)
T KOG2047|consen  140 IWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLE  215 (835)
T ss_pred             chHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHH
Confidence            4555555555555555555555555442    22224444555555555555555554443211      1123334444


Q ss_pred             HHHHHHHcCChh---hHHHHHHHHHHCCCCCCh--HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          194 FITGYCRVNELD---KALHLFSTMANNGIRPNR--VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       194 li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      +-....+..+.-   ....+++.+..  .-+|.  ..|.+|.+-|.+.|.++.|..++++.+..-     ..+.-|+.+.
T Consensus       216 lcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v-----~tvrDFt~if  288 (835)
T KOG2047|consen  216 LCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV-----MTVRDFTQIF  288 (835)
T ss_pred             HHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh-----eehhhHHHHH
Confidence            444444332221   12222222222  12332  345666777777777777777776665532     2333344444


Q ss_pred             HHHHhcCC----------------------HHHHHHHHHHHHHCC-----------CCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          269 DSYFKNGD----------------------KFQALALWNDMFQKN-----------IQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       269 ~~~~~~g~----------------------~~~a~~~~~~~~~~~-----------~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      +.|.....                      ++-....|+.+....           -+.++..|..-..  +..|+..+-
T Consensus       289 d~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~  366 (835)
T KOG2047|consen  289 DAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQ  366 (835)
T ss_pred             HHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHH
Confidence            44433211                      111222222222211           0122233322222  224556666


Q ss_pred             HHHHHHHHHcCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHhcCCHHHHH
Q 009143          316 FAYFCQMLKRGFLPD------VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPD---QISYKTIIQGLCIHGDIVKAR  386 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~  386 (542)
                      ...|.++.+. +.|-      ...|..+.+.|-..|+++.|..+|++..+...+.-   ..+|......-.+..+++.|+
T Consensus       367 i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al  445 (835)
T KOG2047|consen  367 INTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAAL  445 (835)
T ss_pred             HHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            6677766654 2222      23477788888999999999999998877543221   335555555666778889999


Q ss_pred             HHHHHHHhCCCCC-----------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCH-HHHHHHHHHhh
Q 009143          387 EFLLSMLEKSVVP-----------------EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVS-SNV-FTFNALILAET  447 (542)
Q Consensus       387 ~~~~~~~~~~~~~-----------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~-~~~~~ll~~~~  447 (542)
                      +++++.....-.|                 +...|...++.-...|-++....+|+++.+..+. |-. ..|..++    
T Consensus       446 ~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfL----  521 (835)
T KOG2047|consen  446 KLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFL----  521 (835)
T ss_pred             HHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHH----
Confidence            9888775421111                 2334666677777788899999999999885543 433 2344443    


Q ss_pred             cccccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHh---cCCHHHHHHHHHHHhHcCCCCChhHHHHHH--HHH
Q 009143          448 RGASCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGHCA---RGNMKEAEEVFAKIQTLGLAIDHIPFRILK--KRY  521 (542)
Q Consensus       448 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~--~~~  521 (542)
                          -...-++++.+.+++-+..-.-|+. ..|+..+..+.+   .-+++.|..+|++..+ |++|...-+.-|+  ..-
T Consensus       522 ----Eeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lE  596 (835)
T KOG2047|consen  522 ----EEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLE  596 (835)
T ss_pred             ----HhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHH
Confidence                3456678888888877764334555 566666655543   4468889999999988 5655543322222  222


Q ss_pred             HhcCChhHHHHHHHHH
Q 009143          522 RRMKESDKARDIHQKW  537 (542)
Q Consensus       522 ~~~g~~~~A~~~~~~~  537 (542)
                      -+-|....|+++|+++
T Consensus       597 Ee~GLar~amsiyera  612 (835)
T KOG2047|consen  597 EEHGLARHAMSIYERA  612 (835)
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            3458888888888876

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

Probab=99.41  E-value=3.2e-11  Score=105.65  Aligned_cols=234  Identities=15%  Similarity=0.114  Sum_probs=190.1

Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                      +.+..+|.+.|.+.+|...++.-.+.  .|-+.||..|.++|.+..+...|+.++.+-++.-+    .++....-..+.+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP----~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFP----FDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCC----chhhhhhhhHHHH
Confidence            56788888999999999888887764  56778888888999999999999999988888665    7777777788888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEAS  351 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  351 (542)
                      -..++.++|.++++...+.. +.++.....+...|.-.++++-|+.+|+++.+.|+. ++..|..+.-+|.-.+++|-++
T Consensus       301 eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            88899999999999888765 567777777778888889999999999999988854 7788888888888888999888


Q ss_pred             HHHHHHHHCCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          352 HFYGVLSKTGVAPD--QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       352 ~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      .-|.+....--.|+  ..+|..+-......||+.-|.+.|+-.+..+.. +...+|.|.-.-.+.|+.++|..++.....
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            88887766533333  346666777777889999999999998887765 778899998888999999999999988776


Q ss_pred             CCCCCCH
Q 009143          430 FGVSSNV  436 (542)
Q Consensus       430 ~~~~p~~  436 (542)
                      .  .|+.
T Consensus       458 ~--~P~m  462 (478)
T KOG1129|consen  458 V--MPDM  462 (478)
T ss_pred             h--Cccc
Confidence            3  4543

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

Probab=99.40  E-value=8.3e-10  Score=104.08  Aligned_cols=284  Identities=12%  Similarity=0.033  Sum_probs=195.5

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHH
Q 009143          151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILV  230 (542)
Q Consensus       151 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  230 (542)
                      -+......-.+.+...+++.+..++++.+.+..| +....+-.-|.++...|+..+-..+=.+|.+. .+-.+.+|-++.
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dp-fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg  319 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDP-FHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVG  319 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCC-CCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHH
Confidence            3444445555666677888888888888877665 46666666677777778777777777777665 344567787777


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC
Q 009143          231 HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG  310 (542)
Q Consensus       231 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  310 (542)
                      --|.-.|+..+|.+.|.+....++    .-...|..+...|.-.|..|+|...+....+.= +-...-+--+.--|.+.+
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~----~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDP----TFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCc----cccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhc
Confidence            777777888888888888777666    556678888888888888888887777665531 111111222344566777


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C--CCCChhhHHHHHHHHHhcCCHHH
Q 009143          311 DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT----G--VAPDQISYKTIIQGLCIHGDIVK  384 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~--~~~~~~~~~~li~~~~~~g~~~~  384 (542)
                      +.+.|.+.|.+.... .+.|+..++-+.-.....+.+.+|..+|......    +  ...-..+++.|.++|.+.+.+++
T Consensus       395 n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            888888888777655 2446666777766667777788888877765521    0  01123456777777888888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009143          385 AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILA  445 (542)
Q Consensus       385 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~  445 (542)
                      |+..+++.+...++ +..++.++.-.|...|+++.|.+.|.+.+.  +.|+..+...++..
T Consensus       474 AI~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  474 AIDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKL  531 (611)
T ss_pred             HHHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHH
Confidence            88888888776655 777888888888888888888888877765  56777666666644

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.38  E-value=5.1e-08  Score=93.76  Aligned_cols=371  Identities=16%  Similarity=0.150  Sum_probs=165.3

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      +.+.|..+.-.+....++++|+..|+.....+ +.|...|.-+.-.-++.|+++.....-....+..+ .....|..+..
T Consensus        74 S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~-~~ra~w~~~Av  151 (700)
T KOG1156|consen   74 SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRP-SQRASWIGFAV  151 (700)
T ss_pred             cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhh-hhHHHHHHHHH
Confidence            34455555555555555666666666555543 22444555444444555555555555555544433 23445555555


Q ss_pred             HHHHcCChhhHHHHHHHHHHCC-CCCChHHHHHHHHHHH------hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          197 GYCRVNELDKALHLFSTMANNG-IRPNRVTHNILVHALC------KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~l~~~~~------~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      ++.-.|+...|..+++...+.. -.|+...|......+.      +.|..+.|.+.+......-.    .....-..-..
T Consensus       152 s~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~----Dkla~~e~ka~  227 (700)
T KOG1156|consen  152 AQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIV----DKLAFEETKAD  227 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHH----HHHHHhhhHHH
Confidence            5555566666666655555442 2344444443333222      23444444444443322111    22233334445


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-HHHhCCCHHHHH-HHHHHHHHcCCCCCHHHHHHH-HHHHHhcCC
Q 009143          270 SYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN-GFCLNGDISSAF-AYFCQMLKRGFLPDVITYNTL-LNCLCKQGK  346 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~-~~~~~~~~~~A~-~~~~~~~~~~~~p~~~~~~~l-i~~~~~~g~  346 (542)
                      .+.+.+++++|..++..+...+  ||...|..... ++.+-.+.-++. .+|....+.  .|-...-..+ ++......-
T Consensus       228 l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel  303 (700)
T KOG1156|consen  228 LLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEEL  303 (700)
T ss_pred             HHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchh
Confidence            5555566666666666665552  34333333332 222222222222 444443332  1111100000 111111112


Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH----hCC----------CCCCHH--HHHHHHHH
Q 009143          347 LDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSML----EKS----------VVPEPH--IWNVIIDG  410 (542)
Q Consensus       347 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~----------~~~~~~--~~~~li~~  410 (542)
                      .+....++..+.+.|+++   ++..+...|-.....+-..++.-.+.    ..+          -+|...  ++-.++..
T Consensus       304 ~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh  380 (700)
T KOG1156|consen  304 KEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQH  380 (700)
T ss_pred             HHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHH
Confidence            233334444455555433   33333333322111111111111111    110          023332  23344556


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009143          411 YGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARG  490 (542)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  490 (542)
                      +-+.|+++.|...++...+.  .|+.+-.-.+=.-    .+.+.|++++|..++++..+.. .||...-..-+.-..+++
T Consensus       381 ~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaR----I~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn  453 (700)
T KOG1156|consen  381 YDKLGDYEVALEYIDLAIDH--TPTLIELYLVKAR----IFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRAN  453 (700)
T ss_pred             HHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHH----HHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHcc
Confidence            66667777777776666653  5554432211111    2455667777777776666643 334433334444455666


Q ss_pred             CHHHHHHHHHHHhHcCC
Q 009143          491 NMKEAEEVFAKIQTLGL  507 (542)
Q Consensus       491 ~~~~A~~~~~~m~~~g~  507 (542)
                      +.++|.++.....+.|.
T Consensus       454 ~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  454 EIEEAEEVLSKFTREGF  470 (700)
T ss_pred             ccHHHHHHHHHhhhccc
Confidence            67777776666666543

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

Probab=99.37  E-value=6.8e-09  Score=96.27  Aligned_cols=371  Identities=13%  Similarity=0.075  Sum_probs=238.9

Q ss_pred             CCCCC-hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHHcCChhHHHHHHHHHh-hCCCCCCHH
Q 009143          113 TLETD-YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD-VLTHNYLVNELCKIGDLEKADHVIREMS-EMRPSPNCA  189 (542)
Q Consensus       113 ~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~  189 (542)
                      .+.|| +.-|......|...|++++.++.-...++.  .|+ +..+..-..++-+.|++++|+.=..-.- -.|. .|..
T Consensus       143 ~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~lg~~~eal~D~tv~ci~~~F-~n~s  219 (606)
T KOG0547|consen  143 ELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQLGKFDEALFDVTVLCILEGF-QNAS  219 (606)
T ss_pred             hcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHhhccHHHHHHhhhHHHHhhhc-ccch
Confidence            45577 777888888899999999999888888774  454 3456666677777888887743111110 0011 1111


Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHH-HHHCC--CCCChHHHHHHHHHHHh-------------------------cC---C
Q 009143          190 TYNAFITGYCRVNELDKALHLFST-MANNG--IRPNRVTHNILVHALCK-------------------------KG---L  238 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~-m~~~g--~~p~~~~~~~l~~~~~~-------------------------~g---~  238 (542)
                      + ..++.-..+    ..|..-.++ |.+.+  +-|......+....+..                         .+   .
T Consensus       220 ~-~~~~eR~Lk----k~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~  294 (606)
T KOG0547|consen  220 I-EPMAERVLK----KQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAALAEALEALEKGLEEG  294 (606)
T ss_pred             h-HHHHHHHHH----HHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchhhHHHHHHHHHhhCchh
Confidence            1 011111000    011111111 11111  22332222222222110                         01   2


Q ss_pred             hhHHHHHHHHHHhCCCCCCCCc---------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          239 LGDAVKFLGEVLADDDGKATSD---------VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~---------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                      +..|...+.+-..........+         ..+......-+.-.|+.-.|..-|+..+.... .+...|-.+...|...
T Consensus       295 Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~  373 (606)
T KOG0547|consen  295 YLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDP-AFNSLYIKRAAAYADE  373 (606)
T ss_pred             HHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCc-ccchHHHHHHHHHhhh
Confidence            2223332222221111010011         22233333344567899999999999998763 3333388888899999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 009143          310 GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFL  389 (542)
Q Consensus       310 ~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  389 (542)
                      ++.++.+..|.+..+.+ +-++.+|..-...+.-.+++++|..=|++.+... +-+...|..+.-+..+.+++++++..|
T Consensus       374 ~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~F  451 (606)
T KOG0547|consen  374 NQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTF  451 (606)
T ss_pred             hccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999875 4467788888888888999999999999988853 224556666666677889999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-------H--HHHHHHHHHhhcccccccCChHHH
Q 009143          390 LSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN-------V--FTFNALILAETRGASCNLGHIHLA  460 (542)
Q Consensus       390 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-------~--~~~~~ll~~~~~~~~~~~g~~~~A  460 (542)
                      ++.+++-+. -+..|+.....+..+++++.|.+.|+..++.  .|+       .  ..--.++.      +--.+++..|
T Consensus       452 ee~kkkFP~-~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L--E~~~~~~~v~~~plV~Ka~l~------~qwk~d~~~a  522 (606)
T KOG0547|consen  452 EEAKKKFPN-CPEVYNLFAEILTDQQQFDKAVKQYDKAIEL--EPREHLIIVNAAPLVHKALLV------LQWKEDINQA  522 (606)
T ss_pred             HHHHHhCCC-CchHHHHHHHHHhhHHhHHHHHHHHHHHHhh--ccccccccccchhhhhhhHhh------hchhhhHHHH
Confidence            999987544 7889999999999999999999999998873  232       1  11222222      1234999999


Q ss_pred             HHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          461 LQLYDEMLRRGITPD-IITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       461 ~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      ..++++..+.  .|. ...|.+|...-.+.|+.++|+++|++....
T Consensus       523 ~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  523 ENLLRKAIEL--DPKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             HHHHHHHHcc--CchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999986  343 368999999999999999999999987653

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

Probab=99.37  E-value=7.4e-11  Score=103.42  Aligned_cols=231  Identities=15%  Similarity=0.125  Sum_probs=199.0

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHH-HHHHHHHHh
Q 009143          157 NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTH-NILVHALCK  235 (542)
Q Consensus       157 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~-~~l~~~~~~  235 (542)
                      +.+..+|.+.|.+.+|.+.|+..++..  |-+.||-.|-..|.+..++..|+.++.+-.+.  .|-.+|| .-+.+.+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            678999999999999999999988754  56678889999999999999999999988764  4555554 567888899


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      .++.++|.++++.+++..+    .++....++...|.-.++++-|++.++++++.| ..++..|+.+.-+|.-.+++|-+
T Consensus       303 m~~~~~a~~lYk~vlk~~~----~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~  377 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHP----INVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLV  377 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCC----ccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhh
Confidence            9999999999999999887    888888889999999999999999999999999 56888999999999999999999


Q ss_pred             HHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          316 FAYFCQMLKRGFLPD--VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSML  393 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  393 (542)
                      +.-|.+.+..--.|+  ...|-.+.......|++..|.+-|+.....+ ..+...++.|.-.-.+.|++++|..++....
T Consensus       378 L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  378 LPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            999999887644444  4567778888888999999999999888764 3356788888888889999999999999987


Q ss_pred             hCCC
Q 009143          394 EKSV  397 (542)
Q Consensus       394 ~~~~  397 (542)
                      ...+
T Consensus       457 s~~P  460 (478)
T KOG1129|consen  457 SVMP  460 (478)
T ss_pred             hhCc
Confidence            7543

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

Probab=99.35  E-value=8.8e-10  Score=108.99  Aligned_cols=82  Identities=20%  Similarity=0.162  Sum_probs=71.6

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHH
Q 009143          113 TLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYN  192 (542)
Q Consensus       113 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  192 (542)
                      |+.||.+||.++|.-||..|+.+.|- +|.-|.-+..+.+...++.++.+....++.+.+.           .|...+|.
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt   87 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYT   87 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHH
Confidence            78899999999999999999999888 8988887777778888999999888888888773           47778999


Q ss_pred             HHHHHHHHcCChhh
Q 009143          193 AFITGYCRVNELDK  206 (542)
Q Consensus       193 ~li~~~~~~g~~~~  206 (542)
                      .|..+|.+.|+...
T Consensus        88 ~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   88 NLLKAYRIHGDLIL  101 (1088)
T ss_pred             HHHHHHHhccchHH
Confidence            99999999998765

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

Probab=99.35  E-value=1.8e-07  Score=89.92  Aligned_cols=379  Identities=10%  Similarity=0.060  Sum_probs=228.2

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC------CCCChhhHHHHHHHHHHcCC---hhHHHHHHHHHhhCCCCCC
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKG------TVPDVLTHNYLVNELCKIGD---LEKADHVIREMSEMRPSPN  187 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~~~  187 (542)
                      ++..-+-.|..++..+++++|.+.+...+...      .+.+...|..+-+...+.-+   --....+++.+...-...-
T Consensus       168 ~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~  247 (835)
T KOG2047|consen  168 APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQL  247 (835)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHH
Confidence            33445677888999999999999998876531      23455677777777666533   2344555666655443333


Q ss_pred             HHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhH----------------------HHHH
Q 009143          188 CATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGD----------------------AVKF  245 (542)
Q Consensus       188 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~----------------------a~~~  245 (542)
                      ...|.+|.+.|.+.|.+++|.++|++....  ..+..-|..+.++|..-.+-.-                      ...-
T Consensus       248 g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~  325 (835)
T KOG2047|consen  248 GFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMAR  325 (835)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHH
Confidence            568999999999999999999999998764  3466667778888775322111                      1222


Q ss_pred             HHHHHhCCCC--------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhCCCH
Q 009143          246 LGEVLADDDG--------KATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN-----IQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       246 ~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~~~~  312 (542)
                      |+.+....+.        ..+.++..|..-+  -+..|+..+-...+.+..+.=     +..-...|..+.+.|-..|+.
T Consensus       326 ~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  326 FESLMNRRPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHHhccchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            2233322210        0001111222111  122456667777777776531     111234578888999999999


Q ss_pred             HHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----------C------ChhhHHHH
Q 009143          313 SSAFAYFCQMLKRGFLPD---VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA-----------P------DQISYKTI  372 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----------~------~~~~~~~l  372 (542)
                      +.|..+|++..+...+.-   ..+|......=.+..+++.|+++.+......-.           +      +...|...
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            999999999887643221   234555555555677888888888766432111           1      12344455


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHhhcccc
Q 009143          373 IQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV-FTFNALILAETRGAS  451 (542)
Q Consensus       373 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~  451 (542)
                      ++.--..|-++....+++++++..+. ++...-.....+..+.-++++.++|++-+..-..|+. ..|+..+.-+... |
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~r-y  561 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKR-Y  561 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHH-h
Confidence            55555567888888888888887664 4444434444455666778888888776664344555 3455544443221 2


Q ss_pred             cccCChHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHh
Q 009143          452 CNLGHIHLALQLYDEMLRRGITPDIIT--YTELIKGHCARGNMKEAEEVFAKIQ  503 (542)
Q Consensus       452 ~~~g~~~~A~~~~~~~~~~g~~p~~~~--~~~li~~~~~~g~~~~A~~~~~~m~  503 (542)
                       ....++.|..+|++.++ |.+|...-  |......--+.|....|+.++++..
T Consensus       562 -gg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  562 -GGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             -cCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             22467888888888887 55554422  2222222224566666776666644

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

Probab=99.35  E-value=2.1e-08  Score=98.27  Aligned_cols=409  Identities=14%  Similarity=0.086  Sum_probs=271.3

Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH-HhHH
Q 009143          114 LETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNC-ATYN  192 (542)
Q Consensus       114 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~  192 (542)
                      +.-|+..|..+.-++.+.|+++.+.+.|++.... ..-....|..+...|...|.-..|..+++......+.|+. ..+-
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            3467889999999999999999999999998765 3346778999999999999999999999988765533443 3333


Q ss_pred             HHHHHHHH-cCChhhHHHHHHHHHHC--CC--CCChHHHHHHHHHHHhc-----------CChhHHHHHHHHHHhCCCCC
Q 009143          193 AFITGYCR-VNELDKALHLFSTMANN--GI--RPNRVTHNILVHALCKK-----------GLLGDAVKFLGEVLADDDGK  256 (542)
Q Consensus       193 ~li~~~~~-~g~~~~A~~~~~~m~~~--g~--~p~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~  256 (542)
                      ..-..|.+ .+.+++++++..+....  |.  ......|..+.-+|...           ....++.+.+++.++.++  
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~--  475 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP--  475 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC--
Confidence            33333443 47888888888777662  11  11234455454444421           234568888999999887  


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-HHHHH
Q 009143          257 ATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD-VITYN  335 (542)
Q Consensus       257 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~  335 (542)
                        .|..+...+.--|+..++.+.|.+..++..+.+-..+...|..|.-.+...+++.+|+.+.+...+.  .|+ .....
T Consensus       476 --~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E--~~~N~~l~~  551 (799)
T KOG4162|consen  476 --TDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE--FGDNHVLMD  551 (799)
T ss_pred             --CCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH--hhhhhhhch
Confidence              4444444556677888999999999999999866789999999999999999999999999987765  111 11111


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC---------------------CC-------CCChhhHHHHHHHHHhcCCHHHHHH
Q 009143          336 TLLNCLCKQGKLDEASHFYGVLSKT---------------------GV-------APDQISYKTIIQGLCIHGDIVKARE  387 (542)
Q Consensus       336 ~li~~~~~~g~~~~A~~~~~~~~~~---------------------~~-------~~~~~~~~~li~~~~~~g~~~~A~~  387 (542)
                      .-+..-..-++.+++.....++...                     |.       .-...++..+..-...  +...+..
T Consensus       552 ~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~--~~~~~~s  629 (799)
T KOG4162|consen  552 GKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVAS--QLKSAGS  629 (799)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHh--hhhhccc
Confidence            1111112244555554443333211                     00       0011122222211110  0000000


Q ss_pred             HHHHHHhCCC--CCC------HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHH
Q 009143          388 FLLSMLEKSV--VPE------PHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHL  459 (542)
Q Consensus       388 ~~~~~~~~~~--~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~  459 (542)
                      -.. +...-.  .|+      ...|......+.+.++.++|...+.+..... .-....|...-..     +...|..++
T Consensus       630 e~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~-----~~~~~~~~E  702 (799)
T KOG4162|consen  630 ELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLL-----LEVKGQLEE  702 (799)
T ss_pred             ccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHH-----HHHHHhhHH
Confidence            000 111111  122      2246667778889999999998888887632 1122222222111     456799999


Q ss_pred             HHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHH--HHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 009143          460 ALQLYDEMLRRGITPD-IITYTELIKGHCARGNMKEAEE--VFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQK  536 (542)
Q Consensus       460 A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  536 (542)
                      |.+.|......  .|+ +....++..++.+.|+..-|..  ++..+.+.+. .++..|..+...+.+.|+.++|.+.|+-
T Consensus       703 A~~af~~Al~l--dP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~a  779 (799)
T KOG4162|consen  703 AKEAFLVALAL--DPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQA  779 (799)
T ss_pred             HHHHHHHHHhc--CCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHHH
Confidence            99999998875  454 4678899999999999888888  9999999875 4899999999999999999999999999


Q ss_pred             HhhcC
Q 009143          537 WLLRN  541 (542)
Q Consensus       537 ~l~~~  541 (542)
                      +++.+
T Consensus       780 a~qLe  784 (799)
T KOG4162|consen  780 ALQLE  784 (799)
T ss_pred             HHhhc
Confidence            87653

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

Probab=99.35  E-value=5.6e-10  Score=110.31  Aligned_cols=254  Identities=15%  Similarity=0.115  Sum_probs=159.6

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCC
Q 009143          139 WLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNG  218 (542)
Q Consensus       139 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  218 (542)
                      .++-.+...|+.|+..||..+|..||..|+.+.|- +|.-|.-.....+...|+.++.+..+.++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45667788899999999999999999999999998 8888876666667888999999998888888776          


Q ss_pred             CCCChHHHHHHHHHHHhcCChhH---HHHHHHHHHh----CCCCCCCCcHHH-------------HHHHHHHHHhcCCHH
Q 009143          219 IRPNRVTHNILVHALCKKGLLGD---AVKFLGEVLA----DDDGKATSDVIT-------------STILMDSYFKNGDKF  278 (542)
Q Consensus       219 ~~p~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~----~~~~~~~~~~~~-------------~~~l~~~~~~~g~~~  278 (542)
                       .|...||..|..+|...|++..   .++.+..+..    .|.+.  +....             -.+.+....-.|-++
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs--~e~~fl~k~~c~p~~lpda~n~illlv~eglwa  156 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGS--PERWFLMKIHCCPHSLPDAENAILLLVLEGLWA  156 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCc--HHHHHHhhcccCcccchhHHHHHHHHHHHHHHH
Confidence             5888999999999999998765   2222222211    11101  11111             111222223333344


Q ss_pred             HHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNI-QTDIVAYNVLINGFCLN-GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGV  356 (542)
Q Consensus       279 ~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~-~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  356 (542)
                      .+++++..+..... .|..+    .++-+... ..+++-..+.+...+   .|++.+|..++.+-...|+.+.|..++.+
T Consensus       157 qllkll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  157 QLLKLLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            44444333322110 01111    12222211 122222222222222   46777777777777777777777777777


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 009143          357 LSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGD  416 (542)
Q Consensus       357 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  416 (542)
                      |.+.|++.+.+-|-.|+-+   .++..-+..+++-|.+.|+.|+..|+..-+..+..+|.
T Consensus       230 mke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            7777777777666666544   66667777777777777777777777776666666554

>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=99.35  E-value=6e-09  Score=102.51  Aligned_cols=292  Identities=16%  Similarity=0.109  Sum_probs=174.5

Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc-
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN-  274 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  274 (542)
                      ..+...|++++|++.++.-... +.............+.+.|+.++|..++..+++.++    .+..-|..+..+..-. 
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP----dn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP----DNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC----CcHHHHHHHHHHHhhhc
Confidence            3445667777777766654432 332334445566666677777777777777776665    5555555555555222 


Q ss_pred             ----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHH-HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 009143          275 ----GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDIS-SAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE  349 (542)
Q Consensus       275 ----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~-~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  349 (542)
                          .+.+....+++++...-  |.......+.-.+.....+. .+..++..+..+|+++   +|+.|-..|....+.+-
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~  161 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAI  161 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHH
Confidence                24556666666665542  33222222221222212222 3445555666666433   45555555554444444


Q ss_pred             HHHHHHHHHHC----C----------CCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 009143          350 ASHFYGVLSKT----G----------VAPDQ--ISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR  413 (542)
Q Consensus       350 A~~~~~~~~~~----~----------~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  413 (542)
                      ...++......    +          -+|+.  .++..+...|...|++++|++.+++.++..+. .+..|..-...+-+
T Consensus       162 i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh  240 (517)
T PF12569_consen  162 IESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKH  240 (517)
T ss_pred             HHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHH
Confidence            44555444322    1          12333  34566677788889999999999988887654 57788888888889


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHH------H--HHHHHH
Q 009143          414 CGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIIT------Y--TELIKG  485 (542)
Q Consensus       414 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~------~--~~li~~  485 (542)
                      .|++.+|.+.++......  +...-.|+-..-|    +.+.|++++|.+++....+.+..|-...      |  .-...+
T Consensus       241 ~G~~~~Aa~~~~~Ar~LD--~~DRyiNsK~aKy----~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a  314 (517)
T PF12569_consen  241 AGDLKEAAEAMDEARELD--LADRYINSKCAKY----LLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEA  314 (517)
T ss_pred             CCCHHHHHHHHHHHHhCC--hhhHHHHHHHHHH----HHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHH
Confidence            999999999888888743  3333333332222    5567999999998888877654333221      1  345678


Q ss_pred             HHhcCCHHHHHHHHHHHhH
Q 009143          486 HCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       486 ~~~~g~~~~A~~~~~~m~~  504 (542)
                      |.+.|++..|.+.|....+
T Consensus       315 ~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  315 YLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            8899999998887776654

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 [], [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.34  E-value=7.7e-08  Score=92.56  Aligned_cols=84  Identities=23%  Similarity=0.237  Sum_probs=61.4

Q ss_pred             ccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhH
Q 009143          451 SCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDK  529 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~  529 (542)
                      +-+.|+++.|..+++..+.+  .|+. ..|..-.+.+...|++++|..++++..+... +|..+-..-.+-..++++.++
T Consensus       381 ~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYmLrAn~i~e  457 (700)
T KOG1156|consen  381 YDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYMLRANEIEE  457 (700)
T ss_pred             HHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHHHHccccHH
Confidence            66778888888888888765  5665 4566666777888888888888888877643 465555566667778888888


Q ss_pred             HHHHHHHH
Q 009143          530 ARDIHQKW  537 (542)
Q Consensus       530 A~~~~~~~  537 (542)
                      |.++..+.
T Consensus       458 A~~~~skF  465 (700)
T KOG1156|consen  458 AEEVLSKF  465 (700)
T ss_pred             HHHHHHHh
Confidence            88776654

>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=99.32  E-value=9.6e-09  Score=101.07  Aligned_cols=296  Identities=13%  Similarity=0.098  Sum_probs=206.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          227 NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       227 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      .-....+...|++++|++.+.+-...-.    ............+.+.|+.++|..+|..+++.+ |.|..-|..+..+.
T Consensus         8 LY~~~il~e~g~~~~AL~~L~~~~~~I~----Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~   82 (517)
T PF12569_consen    8 LYKNSILEEAGDYEEALEHLEKNEKQIL----DKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEAL   82 (517)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhhhhhCC----CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            3344567889999999999988665443    667788889999999999999999999999986 44555555555555


Q ss_pred             HhC-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 009143          307 CLN-----GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKL-DEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG  380 (542)
Q Consensus       307 ~~~-----~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  380 (542)
                      .-.     .+.+...++|+++...  -|.......+.-.+.....+ ..+...+..+.+.|+++   +++.+-..|....
T Consensus        83 g~~~~~~~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~  157 (517)
T PF12569_consen   83 GLQLQLSDEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPE  157 (517)
T ss_pred             hhhcccccccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChh
Confidence            222     3577888899988776  34433333332222222223 34455667777788653   5666666666555


Q ss_pred             CHHHHHHHHHHHHhC----C----------CCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009143          381 DIVKAREFLLSMLEK----S----------VVPEP--HIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALIL  444 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~----~----------~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~  444 (542)
                      ...-..+++......    +          -.|..  .++..+...|...|++++|++..++.++.  .|+.+-+..+-.
T Consensus       158 K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Ka  235 (517)
T PF12569_consen  158 KAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKA  235 (517)
T ss_pred             HHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHH
Confidence            555555555554432    1          12333  35566788899999999999999999985  566543332222


Q ss_pred             HhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChh------H--HHH
Q 009143          445 AETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHI------P--FRI  516 (542)
Q Consensus       445 ~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~------~--~~~  516 (542)
                      -    .+-+.|++++|.+.++..+..... |...-+-.+..+.+.|+.++|.+++....+.+..|-..      .  ...
T Consensus       236 r----ilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e  310 (517)
T PF12569_consen  236 R----ILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETE  310 (517)
T ss_pred             H----HHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHH
Confidence            1    277889999999999999987533 66666777888899999999999999988765433321      2  245


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhh
Q 009143          517 LKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       517 l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      ...+|.+.|++..|.+.|....+
T Consensus       311 ~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  311 CAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHH
Confidence            66789999999999999887754

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.32  E-value=2.4e-08  Score=88.91  Aligned_cols=384  Identities=13%  Similarity=0.067  Sum_probs=216.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC
Q 009143          123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN  202 (542)
Q Consensus       123 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  202 (542)
                      -+...+.+.|++++|...+..+.+. ..|+...+..|...+.-.|.+.+|..+-...    + .+.-.-..|+....+.+
T Consensus        62 Wia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka----~-k~pL~~RLlfhlahkln  135 (557)
T KOG3785|consen   62 WIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQYIEAKSIAEKA----P-KTPLCIRLLFHLAHKLN  135 (557)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHHHHHHHHHhhC----C-CChHHHHHHHHHHHHhC
Confidence            3445666889999999999988875 4667778888888888889999996665543    2 24445556666666778


Q ss_pred             ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHH-HHHHHHhcCCHHHHH
Q 009143          203 ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTI-LMDSYFKNGDKFQAL  281 (542)
Q Consensus       203 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~a~  281 (542)
                      +-++-..+-+.+..     ...--.+|.......-.+.+|++++..++...+     +-...|. +.-+|.+..-++-+.
T Consensus       136 dEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~-----ey~alNVy~ALCyyKlDYydvsq  205 (557)
T KOG3785|consen  136 DEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRVLQDNP-----EYIALNVYMALCYYKLDYYDVSQ  205 (557)
T ss_pred             cHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcCh-----hhhhhHHHHHHHHHhcchhhhHH
Confidence            87777776666543     223344566666666778999999999988664     3333333 445677888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-------------------------------
Q 009143          282 ALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD-------------------------------  330 (542)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~-------------------------------  330 (542)
                      ++++-.++.- +.++...|..+....+.=+-..|.+-.+.+.+.+-..-                               
T Consensus       206 evl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~I  284 (557)
T KOG3785|consen  206 EVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHI  284 (557)
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhC
Confidence            8888877652 45566667666666665555556666666654421100                               


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC-------CHHHHHHHHHHHHhCCCCCCHH-
Q 009143          331 VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG-------DIVKAREFLLSMLEKSVVPEPH-  402 (542)
Q Consensus       331 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-------~~~~A~~~~~~~~~~~~~~~~~-  402 (542)
                      +..-..|+-.|.+.+++.+|..+..++..  ..|-......++.  ...|       ...-|.+.|+-.-+.+..-|.. 
T Consensus       285 PEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~--aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIp  360 (557)
T KOG3785|consen  285 PEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVF--AALGQETGSREHLKIAQQFFQLVGESALECDTIP  360 (557)
T ss_pred             hHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHH--HHhhhhcCcHHHHHHHHHHHHHhccccccccccc
Confidence            01112223334444555555544443321  1111111111111  1111       1223333333333332221211 


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHH-H
Q 009143          403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYT-E  481 (542)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~  481 (542)
                      --.++...+.-..++++++..+..+...-...|...||..-      +.+..|.+.+|+++|-++....++ |..+|. .
T Consensus       361 GRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N~AQ------Ak~atgny~eaEelf~~is~~~ik-n~~~Y~s~  433 (557)
T KOG3785|consen  361 GRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLNLAQ------AKLATGNYVEAEELFIRISGPEIK-NKILYKSM  433 (557)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHHHH------HHHHhcChHHHHHHHhhhcChhhh-hhHHHHHH
Confidence            12334444555555666655555555543344444444332      255567777787777766654333 444554 4


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhHcCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          482 LIKGHCARGNMKEAEEVFAKIQTLGLAIDH-IPFRILKKRYRRMKESDKARDIHQKW  537 (542)
Q Consensus       482 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  537 (542)
                      |.++|.+.++++-|.+++-++...   .+. .....+..-|.+.+.+--|.+.|...
T Consensus       434 LArCyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~l  487 (557)
T KOG3785|consen  434 LARCYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDEL  487 (557)
T ss_pred             HHHHHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            556777777777776665444322   222 23344455677777776666666554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.32  E-value=3.5e-09  Score=102.87  Aligned_cols=245  Identities=20%  Similarity=0.170  Sum_probs=135.0

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCC---CCCCCCcHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADD---DGKATSDVIT-STILMDSYFKNGDKFQALALWNDMFQK-----N--  291 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~--  291 (542)
                      ..+...+...|...|+++.|+.+++..++.-   .+...+.+.+ .+.+...|...+++++|..+|+++...     |  
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            3566668888888888888888888777640   0000033332 333666777777777777777776542     1  


Q ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-----CC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHC---C
Q 009143          292 IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR-----GF-LPDV-ITYNTLLNCLCKQGKLDEASHFYGVLSKT---G  361 (542)
Q Consensus       292 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----~~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~  361 (542)
                      .+.-..+++.|...|.+.|++++|...+++..+-     |. .|.+ .-++.+...++..+++++|..++....+.   -
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            1222345566666677777777776666655431     11 1111 22444555556666666666665543321   0


Q ss_pred             CCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          362 VAPD----QISYKTIIQGLCIHGDIVKAREFLLSMLEKS-------VVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       362 ~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      +.++    ..+++.+...|...|++++|.+++++++...       ..-....++.+...|.+.+++.+|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~-  437 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD-  437 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH-
Confidence            1111    2345555555555555555555555554321       011122344455555555555555555444332 


Q ss_pred             CCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009143          431 GVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGI-TPDI-ITYTELIKGHCARGNMKEAEEVFAKIQ  503 (542)
Q Consensus       431 ~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~  503 (542)
                                                      +.   ...|. .|+. .+|..|...|.+.|++++|.++.+...
T Consensus       438 --------------------------------i~---~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 --------------------------------IM---KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             --------------------------------HH---HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                                            01   11121 2343 688899999999999999999888766

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.32  E-value=7.7e-08  Score=91.57  Aligned_cols=406  Identities=16%  Similarity=0.144  Sum_probs=221.6

Q ss_pred             hHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH--HHHHHH--HcCChhHH
Q 009143           97 NLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNY--LVNELC--KIGDLEKA  172 (542)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~--li~~~~--~~g~~~~A  172 (542)
                      .++++......+..  ..+.+...+..-+-++.+.+++++|+.+.+.-..      ..+++.  +=.+||  +.+..|+|
T Consensus        27 e~e~a~k~~~Kil~--~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc~Yrlnk~Dea   98 (652)
T KOG2376|consen   27 EYEEAVKTANKILS--IVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYCEYRLNKLDEA   98 (652)
T ss_pred             HHHHHHHHHHHHHh--cCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHHHHHcccHHHH
Confidence            44444444444331  2234555666667778888888888754433221      011111  233443  57888888


Q ss_pred             HHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChH--HHHHHHHHHHhcCChhHHHHHHHHHH
Q 009143          173 DHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRV--THNILVHALCKKGLLGDAVKFLGEVL  250 (542)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~  250 (542)
                      ...++-..    ..+..+...-...+.+.|++++|+++|+.+.+.+.+ +..  .-..++.+-    ..-.+. +.+...
T Consensus        99 lk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d~d~~~r~nl~a~~----a~l~~~-~~q~v~  168 (652)
T KOG2376|consen   99 LKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-DQDEERRANLLAVA----AALQVQ-LLQSVP  168 (652)
T ss_pred             HHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHH----HhhhHH-HHHhcc
Confidence            77776221    123335556667777888888888888888776432 221  111111111    111111 121111


Q ss_pred             hCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCHH-------HHHHHHHHHHhCCCHHHHH
Q 009143          251 ADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK-------NIQTDIV-------AYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       251 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~-------~~~~li~~~~~~~~~~~A~  316 (542)
                      .    ....+-..+....-.+...|++.+|+++++...+.       +-.-+..       +-..|...+...|+..+|.
T Consensus       169 ~----v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~  244 (652)
T KOG2376|consen  169 E----VPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEAS  244 (652)
T ss_pred             C----CCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHH
Confidence            1    11123333444455677889999999999988322       1111111       1233455677889999999


Q ss_pred             HHHHHHHHcCCCCCHHHH----HHHHHHHHhcCC-H----------------HHHHHHH---------------------
Q 009143          317 AYFCQMLKRGFLPDVITY----NTLLNCLCKQGK-L----------------DEASHFY---------------------  354 (542)
Q Consensus       317 ~~~~~~~~~~~~p~~~~~----~~li~~~~~~g~-~----------------~~A~~~~---------------------  354 (542)
                      .+|...++.. .+|....    |.|+.. ..-.+ +                +.+...+                     
T Consensus       245 ~iy~~~i~~~-~~D~~~~Av~~NNLva~-~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk  322 (652)
T KOG2376|consen  245 SIYVDIIKRN-PADEPSLAVAVNNLVAL-SKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNK  322 (652)
T ss_pred             HHHHHHHHhc-CCCchHHHHHhcchhhh-ccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999998875 3333221    111111 00000 0                0000000                     


Q ss_pred             ----HHHHHC--CCCCChhhHHHHHHHHH--hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH-
Q 009143          355 ----GVLSKT--GVAPDQISYKTIIQGLC--IHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRD-  425 (542)
Q Consensus       355 ----~~~~~~--~~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~-  425 (542)
                          .+....  +..|. ..+..++....  +.....+|.+++...-+..+.-.....-.++......|+++.|.+++. 
T Consensus       323 ~~q~r~~~a~lp~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~  401 (652)
T KOG2376|consen  323 MDQVRELSASLPGMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSL  401 (652)
T ss_pred             HHHHHHHHHhCCccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                000000  11222 22333333322  222466777777776665544335566667777888999999999999 


Q ss_pred             -------HHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh--CCCCCCHHHHH----HHHHHHHhcCCH
Q 009143          426 -------LMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR--RGITPDIITYT----ELIKGHCARGNM  492 (542)
Q Consensus       426 -------~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~--~g~~p~~~~~~----~li~~~~~~g~~  492 (542)
                             .+.+.+..|..+.+...+       +.+.++-+.|..++.+.+.  ..-.+......    -++..-.+.|+-
T Consensus       402 ~~~~~~ss~~~~~~~P~~V~aiv~l-------~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~  474 (652)
T KOG2376|consen  402 FLESWKSSILEAKHLPGTVGAIVAL-------YYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNE  474 (652)
T ss_pred             HhhhhhhhhhhhccChhHHHHHHHH-------HHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCch
Confidence                   666666677776655555       4566676667777776664  11122223333    333444578999


Q ss_pred             HHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 009143          493 KEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQK  536 (542)
Q Consensus       493 ~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  536 (542)
                      ++|..+++++.+.. ++|..+...++.+|++. +.+.|..+-++
T Consensus       475 ~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  475 EEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            99999999999853 46888888888888754 45666655443

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

Probab=99.30  E-value=1.5e-07  Score=85.78  Aligned_cols=299  Identities=13%  Similarity=0.021  Sum_probs=219.7

Q ss_pred             HHHHHHHH--cCChhhHHHHHHHHHHC-CCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          193 AFITGYCR--VNELDKALHLFSTMANN-GIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       193 ~li~~~~~--~g~~~~A~~~~~~m~~~-g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      ..+.++++  .++...|...+-.+... -++-|+.....+.+.+...|+.++|+..|++....++    .++.......-
T Consensus       199 ~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dp----y~i~~MD~Ya~  274 (564)
T KOG1174|consen  199 KWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANP----DNVEAMDLYAV  274 (564)
T ss_pred             HHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCCh----hhhhhHHHHHH
Confidence            34444443  34444454444433332 2566778889999999999999999999999998776    56666666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 009143          270 SYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE  349 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  349 (542)
                      .+.+.|+.+....+...+.... .-....|..-+......++++.|+.+-++..+.. +-+...|..-...+...+++++
T Consensus       275 LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~  352 (564)
T KOG1174|consen  275 LLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQ  352 (564)
T ss_pred             HHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHH
Confidence            7788999999999888887653 2345556666666777899999999999988764 3345555555567888999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHH-HhcCChHHHHHHHHHH
Q 009143          350 ASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVII-DGY-GRCGDLSNAFSIRDLM  427 (542)
Q Consensus       350 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li-~~~-~~~g~~~~A~~~~~~m  427 (542)
                      |.-.|+...... +-+...|.-|++.|...|++.+|.-+-+...+.-. -+..+...+. ..+ .....-++|.++++..
T Consensus       353 A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~-~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~  430 (564)
T KOG1174|consen  353 AVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQ-NSARSLTLFGTLVLFPDPRMREKAKKFAEKS  430 (564)
T ss_pred             HHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhh-cchhhhhhhcceeeccCchhHHHHHHHHHhh
Confidence            999999887752 34688999999999999999999887777665422 2555555543 222 2233457888888887


Q ss_pred             HhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCC
Q 009143          428 LSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGL  507 (542)
Q Consensus       428 ~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  507 (542)
                      ..  +.|+..--...+.-+    +...|..++++.++++....  .||....+.|.+.+...+.+++|.+.|....+.++
T Consensus       431 L~--~~P~Y~~AV~~~AEL----~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP  502 (564)
T KOG1174|consen  431 LK--INPIYTPAVNLIAEL----CQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDP  502 (564)
T ss_pred             hc--cCCccHHHHHHHHHH----HHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCc
Confidence            76  456653332222221    55679999999999998875  78999999999999999999999999998887643

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

Probab=99.29  E-value=5.2e-09  Score=87.89  Aligned_cols=206  Identities=18%  Similarity=0.134  Sum_probs=169.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      +...|.-.|.+.|++..|..-+++.++.. +-+..+|..+...|.+.|+.+.|.+.|+......| .+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHH
Confidence            55667778999999999999999999874 23566888899999999999999999999988776 37788899999999


Q ss_pred             HcCChhhHHHHHHHHHHCC-CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          200 RVNELDKALHLFSTMANNG-IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      ..|++++|...|++....- ..--..||..+.-+..+.|+.+.|...|++.++.++    ....+...+.+...+.|++-
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp----~~~~~~l~~a~~~~~~~~y~  190 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP----QFPPALLELARLHYKAGDYA  190 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc----CCChHHHHHHHHHHhcccch
Confidence            9999999999999988753 222356788888888899999999999999999887    66677888888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITY  334 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~  334 (542)
                      .|...++.....+ .++..+.-..|..--..|+.+.+-+.=.++.+.  -|...-|
T Consensus       191 ~Ar~~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~  243 (250)
T COG3063         191 PARLYLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEY  243 (250)
T ss_pred             HHHHHHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            9999998888777 488888888888888889988888777777665  4544433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.29  E-value=2.1e-09  Score=104.40  Aligned_cols=198  Identities=18%  Similarity=0.186  Sum_probs=119.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC-----CC-CC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCCH-H
Q 009143          337 LLNCLCKQGKLDEASHFYGVLSKT-----GV-AP-DQISYKTIIQGLCIHGDIVKAREFLLSMLEK-----SV-VPEP-H  402 (542)
Q Consensus       337 li~~~~~~g~~~~A~~~~~~~~~~-----~~-~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~~-~  402 (542)
                      +...|...+++++|..+|+++...     |- .| -..+++.|..+|.+.|++++|...+++..+.     +. .|.+ .
T Consensus       247 ~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            444555556666666655555432     10 11 1224444555566666666665555554321     11 1111 2


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCCH----HHHHHHHHHhhcccccccCChHHHHHHHHHHHhC-----
Q 009143          403 IWNVIIDGYGRCGDLSNAFSIRDLMLSF---GVSSNV----FTFNALILAETRGASCNLGHIHLALQLYDEMLRR-----  470 (542)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~~----~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~-----  470 (542)
                      .++.++..++..+++++|..+++...+.   -+.++.    .+++.+-..     |.+.|++++|.+++++++..     
T Consensus       327 ~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l-----~~~~gk~~ea~~~~k~ai~~~~~~~  401 (508)
T KOG1840|consen  327 QLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAEL-----YLKMGKYKEAEELYKKAIQILRELL  401 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH-----HHHhcchhHHHHHHHHHHHHHHhcc
Confidence            3555666667777777777777665431   122222    234444433     56677888888777777641     


Q ss_pred             C-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhH----cCCC-C-ChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          471 G-ITPD-IITYTELIKGHCARGNMKEAEEVFAKIQT----LGLA-I-DHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       471 g-~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      | ..+. ...++.|...|.+.+++++|.++|.+...    .|.. | ...+|..|...|.+.|+++.|.++.++.+.
T Consensus       402 ~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  402 GKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             cCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            1 1222 35678899999999999999999987543    3321 2 246789999999999999999999998863

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=1e-11  Score=80.93  Aligned_cols=50  Identities=46%  Similarity=0.990  Sum_probs=40.4

Q ss_pred             CCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 009143          186 PNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK  235 (542)
Q Consensus       186 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  235 (542)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            67788888888888888888888888888888888888888888887764

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=1.6e-11  Score=79.94  Aligned_cols=49  Identities=49%  Similarity=0.920  Sum_probs=28.4

Q ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009143          294 TDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLC  342 (542)
Q Consensus       294 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  342 (542)
                      ||..+|+++|++|++.|++++|+++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.23  E-value=1.5e-08  Score=94.41  Aligned_cols=225  Identities=13%  Similarity=0.025  Sum_probs=121.2

Q ss_pred             ChhhHHHHHHHHHHCC-CCCC--hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH
Q 009143          203 ELDKALHLFSTMANNG-IRPN--RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ  279 (542)
Q Consensus       203 ~~~~A~~~~~~m~~~g-~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  279 (542)
                      ..+.++.-+.++.... ..|+  ...|..+...+...|+.++|...|++.++..+    .+..+|+.+...+...|++++
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P----~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP----DMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHCCCHHH
Confidence            3444555555554321 1111  23455556666666777777777776666655    556666777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          280 ALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       280 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      |...|++..+.. +.+..+|..+..++...|++++|++.|++..+.  .|+..........+...++.++|...+.....
T Consensus       117 A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        117 AYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            777777766654 334556666666666677777777777776665  33322111222223345567777777755443


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh---CCC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 009143          360 TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLE---KSV---VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVS  433 (542)
Q Consensus       360 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  433 (542)
                      .. .|+...+ .+.  ....|+...+ +.+..+.+   ..+   +.....|..+...+.+.|++++|...|++..+.+ .
T Consensus       194 ~~-~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~  267 (296)
T PRK11189        194 KL-DKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-V  267 (296)
T ss_pred             hC-CccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-C
Confidence            21 2222211 122  2223443332 23333321   111   0123467777788888888888888888877643 2


Q ss_pred             CCHHHHH
Q 009143          434 SNVFTFN  440 (542)
Q Consensus       434 p~~~~~~  440 (542)
                      ||.+.+.
T Consensus       268 ~~~~e~~  274 (296)
T PRK11189        268 YNFVEHR  274 (296)
T ss_pred             chHHHHH
Confidence            3444333

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

Probab=99.22  E-value=2.2e-08  Score=84.25  Aligned_cols=199  Identities=19%  Similarity=0.086  Sum_probs=144.8

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK  235 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  235 (542)
                      ...|.-.|...|++..|..-+++.++..|+ +..+|..+...|.+.|+.+.|.+.|++..+.. +-+..+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            344566678888888888888888877653 66778888888888888888888888877653 2245667777777788


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      .|++++|...|++.+......  .-..+|..+.-+..+.|+.+.|...|++.++.. +-...+.-.+.....+.|++-.|
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~--~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYG--EPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCC--CcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHH
Confidence            888888888888887754423  455677777777788888888888888877765 44555666777777778888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          316 FAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      ...++.....+. ++..+....|..-...|+.+.+.+.=..+.+.
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            887777776653 77777777777777777777776666555553

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.21  E-value=4.4e-07  Score=81.08  Aligned_cols=368  Identities=10%  Similarity=0.051  Sum_probs=160.7

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      ++...+..|.....-.|.+.+|..+-.+..+     ++..-..+.....+.|+-++-..+-..+.+     ...---+|.
T Consensus        89 ~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLA  158 (557)
T KOG3785|consen   89 APAELGVNLACCKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLA  158 (557)
T ss_pred             CCcccchhHHHHHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHH
Confidence            4444555554444445666666554433221     223333344444455554444444333322     111222333


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHH-HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNI-LVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      ......-.+++|++++.+....+  |+-...+. +.-.|.+..-++-+.++++-.+..-+    .+..+.|.......+.
T Consensus       159 svhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~p----dStiA~NLkacn~fRl  232 (557)
T KOG3785|consen  159 SVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFP----DSTIAKNLKACNLFRL  232 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCC----CcHHHHHHHHHHHhhh
Confidence            33333445566666666665432  33333332 23344455555666666665555443    4445555544444443


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHH-------------------------------HHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          275 GDKFQALALWNDMFQKNIQTDIVA-------------------------------YNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~~~~~~-------------------------------~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      =+-..|.+-...+.+.+-..-+..                               --.|+-.|.+.+++.+|..+.+++.
T Consensus       233 ~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~  312 (557)
T KOG3785|consen  233 INGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLD  312 (557)
T ss_pred             hccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcC
Confidence            333333333344433321110000                               0112223445555555555554432


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcC-------CHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          324 KRGFLPDVITYNTLLNCLCKQG-------KLDEASHFYGVLSKTGVAPDQ-ISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       324 ~~~~~p~~~~~~~li~~~~~~g-------~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      -.  .|-......+..  ...|       ...-|.+.|...-.++..-|. ..-.++...+.-..++++.+-.+..+..-
T Consensus       313 Pt--tP~EyilKgvv~--aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY  388 (557)
T KOG3785|consen  313 PT--TPYEYILKGVVF--AALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY  388 (557)
T ss_pred             CC--ChHHHHHHHHHH--HHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11  122222222221  1222       233444444444333332222 22333444444455566666555555543


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCC
Q 009143          396 SVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPD  475 (542)
Q Consensus       396 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~  475 (542)
                      -...|...+ .+.++++..|++.+|.++|-++....+ .|..+|.+++.-|    |.+.+.++.|+.++-++-.   +.+
T Consensus       389 F~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArC----yi~nkkP~lAW~~~lk~~t---~~e  459 (557)
T KOG3785|consen  389 FTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARC----YIRNKKPQLAWDMMLKTNT---PSE  459 (557)
T ss_pred             hcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHH----HHhcCCchHHHHHHHhcCC---chh
Confidence            333233333 345566666666666666655543221 3445555555554    5555666666555544332   112


Q ss_pred             HHHH-HHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHH
Q 009143          476 IITY-TELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPF  514 (542)
Q Consensus       476 ~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  514 (542)
                      .... ..+...|.+.+.+--|.+.|+.+...  .|++.-|
T Consensus       460 ~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnW  497 (557)
T KOG3785|consen  460 RFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENW  497 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCcccc
Confidence            2222 22334555566666566666555544  3444444

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

Probab=99.20  E-value=1.8e-07  Score=90.48  Aligned_cols=304  Identities=13%  Similarity=0.052  Sum_probs=174.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCh-hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGT-VPDV-LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAF  194 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  194 (542)
                      ....|..+...+...|+.+.+...+....+... .++. .........+...|++++|.+.+++..+..|. +...+.. 
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-   82 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-   82 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-
Confidence            344667777777777888887777776655421 1222 12222334466789999999999988876653 4444442 


Q ss_pred             HHHHHH----cCChhhHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          195 ITGYCR----VNELDKALHLFSTMANNGIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       195 i~~~~~----~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      ...+..    .+..+.+.+.++.  .....|+ ......+...+...|++++|.+.+++.++..+    .+...+..+..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p----~~~~~~~~la~  156 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNP----DDAWAVHAVAH  156 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC----CCcHHHHHHHH
Confidence            222222    3444555555544  1112233 33444566777888999999999999988776    66778888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCHHHH-H--HHHHHHH
Q 009143          270 SYFKNGDKFQALALWNDMFQKNI-QTDI--VAYNVLINGFCLNGDISSAFAYFCQMLKRGF-LPDVITY-N--TLLNCLC  342 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~p~~~~~-~--~li~~~~  342 (542)
                      .+...|++++|...+++...... .++.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+.
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            89999999999999888876532 1222  3455677888888999999999988754321 1111111 1  2222333


Q ss_pred             hcCCHHHHHHH---HHHHHHCCCCCChhhH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--------CHHHHHHHHH
Q 009143          343 KQGKLDEASHF---YGVLSKTGVAPDQISY--KTIIQGLCIHGDIVKAREFLLSMLEKSVVP--------EPHIWNVIID  409 (542)
Q Consensus       343 ~~g~~~~A~~~---~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--------~~~~~~~li~  409 (542)
                      ..|..+.+.++   ....... .+.....+  .....++...|+.++|..++..+......+        .+...-...-
T Consensus       237 ~~g~~~~~~~w~~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~  315 (355)
T cd05804         237 LAGHVDVGDRWEDLADYAAWH-FPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEAL  315 (355)
T ss_pred             hcCCCChHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHH
Confidence            34433333332   1111111 01111112  234455666777888888887776532110        1111122223


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 009143          410 GYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~  429 (542)
                      ++...|++++|.+.+.....
T Consensus       316 ~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         316 YAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            34567777777777766654

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.20  E-value=2.3e-08  Score=93.20  Aligned_cols=122  Identities=15%  Similarity=0.014  Sum_probs=62.0

Q ss_pred             cCChHHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhH
Q 009143          131 GGKIGTALWLRRKMIQKG-TVPD--VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKA  207 (542)
Q Consensus       131 ~g~~~~A~~~~~~m~~~g-~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  207 (542)
                      .++.+.++.-+.+++... ..|+  ...|..+...|...|+.++|...|++..+..| .+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHH
Confidence            345555555555555431 1111  23345555555555666566555555555444 2455555555555555555555


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 009143          208 LHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       208 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  254 (542)
                      .+.|++..+.. +-+..++..+..++...|++++|.+.++..++..+
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P  163 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDP  163 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            55555555432 11234444555555555555555555555555443

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

Probab=99.19  E-value=1.8e-07  Score=90.63  Aligned_cols=200  Identities=12%  Similarity=0.040  Sum_probs=126.5

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC-CCH-HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPS-PNC-ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILV  230 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  230 (542)
                      ...|..+...+...|+.+.+.+.+....+..+. ++. .........+...|++++|.+++++..+.. +.+...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-h
Confidence            345666666677778888877777666554331 221 122223345567788999999888887652 223334332 2


Q ss_pred             HHHHh----cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          231 HALCK----KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       231 ~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      ..+..    .+..+.+.+.+.....    ..+........+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~  158 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLWAP----ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVL  158 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhccCc----CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            22222    3444445544443111    112445556667778888888888888888888775 55567778888888


Q ss_pred             HhCCCHHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          307 CLNGDISSAFAYFCQMLKRGF-LPDV--ITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~~~~-~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      ...|++++|...+++...... .|+.  ..|..+...+...|++++|..++++...
T Consensus       159 ~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         159 EMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            888888888888888776531 1222  2355677778888888888888888754

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.11  E-value=4.1e-07  Score=79.36  Aligned_cols=293  Identities=13%  Similarity=0.144  Sum_probs=198.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHH-HHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNA-FITGY  198 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-li~~~  198 (542)
                      -+++.+..+.+..++.+|++++..-.++. +.+....+.|..+|....++..|-..++++-...  |...-|.. -...+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSL   88 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHH
Confidence            36777777888889999999888877763 2266778888888889999999999998887644  34443332 24566


Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCChHHHHHHH--HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNRVTHNILV--HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      .+.+.+..|+.+...|...   |+...-..-+  ......+++..+..++++....      .+..+.+...-...+.|+
T Consensus        89 Y~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e------n~Ad~~in~gCllykegq  159 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE------NEADGQINLGCLLYKEGQ  159 (459)
T ss_pred             HHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC------Cccchhccchheeecccc
Confidence            7788899999998888653   2222221122  2234577888888888776432      344455666667788899


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-------------CCHHH--------HH
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFL-------------PDVIT--------YN  335 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~-------------p~~~~--------~~  335 (542)
                      ++.|.+-|+...+-+--.....|+.-+ +..+.++++.|+++..++.++|++             ||+..        -+
T Consensus       160 yEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S  238 (459)
T KOG4340|consen  160 YEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH
Confidence            999999999888865445556676554 455678899999999888877643             12111        12


Q ss_pred             HHHH-------HHHhcCCHHHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 009143          336 TLLN-------CLCKQGKLDEASHFYGVLSKT-GVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVI  407 (542)
Q Consensus       336 ~li~-------~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  407 (542)
                      .++.       .+.+.|+++.|.+.+..|..+ ....|+.|...+.-.= -.+++.+..+-+.-+++.++- ...||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChHHHHHH
Confidence            2333       345678888888888777543 2344566655443221 235566666666666666664 56788888


Q ss_pred             HHHHHhcCChHHHHHHHHHH
Q 009143          408 IDGYGRCGDLSNAFSIRDLM  427 (542)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m  427 (542)
                      +-.||+..-++-|-.++.+-
T Consensus       317 LllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhC
Confidence            88999999898888887653

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

Probab=99.10  E-value=2.8e-07  Score=87.00  Aligned_cols=370  Identities=18%  Similarity=0.127  Sum_probs=246.7

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCC
Q 009143          160 VNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPN-RVTHNILVHALCKKGL  238 (542)
Q Consensus       160 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~  238 (542)
                      ..+.+..|+++.|+..|-+.....|. |.+.|..-..+|...|++++|++=-.+-++.  .|+ ...|.....++.-.|+
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 GNAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            45667889999999999999988774 8899999999999999999999877776664  566 4689999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHC---CCCCCHHHHHHHHHHHHhC---
Q 009143          239 LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ---ALALWNDMFQK---NIQTDIVAYNVLINGFCLN---  309 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~---  309 (542)
                      +++|+.-|.+-++.++    .+...++.+.+++.......+   --.++..+...   ........|..++...-+.   
T Consensus        86 ~~eA~~ay~~GL~~d~----~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~  161 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDP----SNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTS  161 (539)
T ss_pred             HHHHHHHHHHHhhcCC----chHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHh
Confidence            9999999999999887    888999999988822110000   00111111110   0000111233333222111   


Q ss_pred             -------CCHHHHHHHHHHH-----HHcC-------CCC----------------------CHHHHHHHHHHHHhcCCHH
Q 009143          310 -------GDISSAFAYFCQM-----LKRG-------FLP----------------------DVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       310 -------~~~~~A~~~~~~~-----~~~~-------~~p----------------------~~~~~~~li~~~~~~g~~~  348 (542)
                             .+...+...+...     ...|       ..|                      -..-...+.++..+..+++
T Consensus       162 l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~  241 (539)
T KOG0548|consen  162 LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFE  241 (539)
T ss_pred             hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHH
Confidence                   1111222111110     0001       111                      0112455677777788889


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-------HHHHHHhcCChHHHH
Q 009143          349 EASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNV-------IIDGYGRCGDLSNAF  421 (542)
Q Consensus       349 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-------li~~~~~~g~~~~A~  421 (542)
                      .|.+-+.......  -+..-++....+|...|.+.+.........+.|-. ...-|+.       +..+|.+.++++.+.
T Consensus       242 ~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai  318 (539)
T KOG0548|consen  242 TAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAI  318 (539)
T ss_pred             HHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHH
Confidence            9999888887754  45556667777888888888888777777666543 2233333       344566678889999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHh--------------------hcccccccCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009143          422 SIRDLMLSFGVSSNVFTFNALILAE--------------------TRGASCNLGHIHLALQLYDEMLRRGITPDIITYTE  481 (542)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~ll~~~--------------------~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  481 (542)
                      ..|.+....-..|+..+-.....--                    ..+.+.+.|++..|++.+.+++... +-|...|..
T Consensus       319 ~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsN  397 (539)
T KOG0548|consen  319 KYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSN  397 (539)
T ss_pred             HHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHH
Confidence            9988877644444443211111000                    0233667899999999999999875 346789999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          482 LIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       482 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      ..-+|.+.|.+.+|..=.+...+... +....|..=..++....++++|.+.|++.++.|
T Consensus       398 RAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  398 RAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            99999999999999998888887632 344556666677788889999999999998876

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.09  E-value=1.1e-06  Score=96.27  Aligned_cols=344  Identities=13%  Similarity=0.033  Sum_probs=215.3

Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---CC--cHHHHHHHHHHH
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKA---TS--DVITSTILMDSY  271 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~--~~~~~~~l~~~~  271 (542)
                      .....|+++.+..+++.+.......+..........+...|+++++...+......-....   .+  .......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777777766552211111222334445556688999999999988765321000   01  122333445566


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC---CC--CHHHHHHHHHHHH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDI----VAYNVLINGFCLNGDISSAFAYFCQMLKRGF---LP--DVITYNTLLNCLC  342 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~---~p--~~~~~~~li~~~~  342 (542)
                      ...|++++|...+++..+.-...+.    ...+.+...+...|++++|...+.+.....-   .+  ...++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            7899999999999998763212221    3456667778889999999999988775311   11  1234556677788


Q ss_pred             hcCCHHHHHHHHHHHHHC----CCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHH
Q 009143          343 KQGKLDEASHFYGVLSKT----GVA--P-DQISYKTIIQGLCIHGDIVKAREFLLSMLEK----SVVPEPHIWNVIIDGY  411 (542)
Q Consensus       343 ~~g~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li~~~  411 (542)
                      ..|++++|...+++....    +..  + ....+..+...+...|++++|...+.+....    +.......+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998876542    211  1 1223445556677789999999999887653    1111234455567778


Q ss_pred             HhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHH
Q 009143          412 GRCGDLSNAFSIRDLMLSFGV-SSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI---ITYTELIKGHC  487 (542)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~li~~~~  487 (542)
                      ...|++++|...++....... ......+...........+...|+.+.|.+.+............   ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            899999999999988754210 11111111110000000133468999999998776542111111   12456777888


Q ss_pred             hcCCHHHHHHHHHHHhHc----CCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          488 ARGNMKEAEEVFAKIQTL----GLAID-HIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       488 ~~g~~~~A~~~~~~m~~~----g~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      ..|++++|...+++....    |..++ ..+...+..++.+.|+.++|.+.+.++++.
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999987653    33222 245667778899999999999999999763

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

Probab=99.09  E-value=7e-06  Score=73.33  Aligned_cols=304  Identities=12%  Similarity=0.073  Sum_probs=225.4

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHh-HHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCAT-YNAF  194 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l  194 (542)
                      .++.-+.-+...+.-.|++.+|+.-|...++.. +.+-.++..-...|...|+..-|+.=+.++++.  +||-.. --.-
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQR  112 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQR  112 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHh
Confidence            466667788899999999999999999988752 223334455566789999999999999998884  456322 2223


Q ss_pred             HHHHHHcCChhhHHHHHHHHHHCCCCCC--hHH------------HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc
Q 009143          195 ITGYCRVNELDKALHLFSTMANNGIRPN--RVT------------HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD  260 (542)
Q Consensus       195 i~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~------------~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  260 (542)
                      ...+.+.|.+++|..=|+...+.....+  ...            ....+..+.-.|+...|+.....+++..+    -+
T Consensus       113 g~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~----Wd  188 (504)
T KOG0624|consen  113 GVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP----WD  188 (504)
T ss_pred             chhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc----ch
Confidence            4567889999999999999987632111  111            22334556678999999999999999887    88


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH----HHH
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVIT----YNT  336 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~----~~~  336 (542)
                      ...|..-..+|...|++..|+.=++...+.. ..++.++..+-..+...|+.+.++...++.++.  .||...    |..
T Consensus       189 a~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKk  265 (504)
T KOG0624|consen  189 ASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKK  265 (504)
T ss_pred             hHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHH
Confidence            9999999999999999999998887776654 456777777888889999999999999999876  566432    211


Q ss_pred             H---------HHHHHhcCCHHHHHHHHHHHHHCCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 009143          337 L---------LNCLCKQGKLDEASHFYGVLSKTGVAPDQ---ISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIW  404 (542)
Q Consensus       337 l---------i~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  404 (542)
                      |         +......+++.++....+...+.......   ..+..+-.++...|++.+|++...++++-.+. |+.++
T Consensus       266 lkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~-dv~~l  344 (504)
T KOG0624|consen  266 LKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPD-DVQVL  344 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCch-HHHHH
Confidence            1         12234456777777777777765433122   23445556667788899999999999886543 68888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          405 NVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      .--..+|.-...++.|+.-|+...+.
T Consensus       345 ~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  345 CDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            88889999999999999999998874

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

Probab=99.09  E-value=5.9e-07  Score=79.97  Aligned_cols=203  Identities=16%  Similarity=0.071  Sum_probs=118.8

Q ss_pred             CHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHH
Q 009143          187 NCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTI  266 (542)
Q Consensus       187 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  266 (542)
                      ++.-.--+...+...|++..|+.-|....+.. +-+-.++-.-...|...|+-..|+.-+..+++..+    .-..+...
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKp----DF~~ARiQ  111 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKP----DFMAARIQ  111 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCc----cHHHHHHH
Confidence            34444456666777777777777777766531 11223333345567777777777777777777554    33344444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHH------------HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Q 009143          267 LMDSYFKNGDKFQALALWNDMFQKNIQT--DIVAY------------NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVI  332 (542)
Q Consensus       267 l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~------------~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~  332 (542)
                      -...+.+.|.+++|..=|+..++.....  ....+            ...+..+...|+...|++....+++-. +.|..
T Consensus       112 Rg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~  190 (504)
T KOG0624|consen  112 RGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDAS  190 (504)
T ss_pred             hchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhH
Confidence            5566777888888888888777663111  11111            122333445566666666666666642 44555


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 009143          333 TYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKS  396 (542)
Q Consensus       333 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  396 (542)
                      .|..-..+|...|.+..|+.=+....+.. ..+..++--+-..+...|+.+.++...++.++.+
T Consensus       191 l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld  253 (504)
T KOG0624|consen  191 LRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD  253 (504)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC
Confidence            66666666666777666666555554432 2234444455555666677666666666666543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.05  E-value=2.2e-07  Score=80.97  Aligned_cols=206  Identities=15%  Similarity=0.125  Sum_probs=149.6

Q ss_pred             CCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHH
Q 009143          148 GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHN  227 (542)
Q Consensus       148 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  227 (542)
                      |......-+.+.+..+.+..++++|++++..-.+..+ .+......|..+|....++..|-+.++++-..  .|...-|.
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYr   81 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYR   81 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHH
Confidence            4444445578888888999999999999999888765 37788899999999999999999999999764  45555554


Q ss_pred             -HHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          228 -ILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       228 -~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                       .-...+.+.+.+.+|+++...+.....    .-......-.......+++..+..+.++....|   +..+.+...-..
T Consensus        82 lY~AQSLY~A~i~ADALrV~~~~~D~~~----L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCll  154 (459)
T KOG4340|consen   82 LYQAQSLYKACIYADALRVAFLLLDNPA----LHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLL  154 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcCCHH----HHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchhee
Confidence             235667789999999999988854311    111112222223345678888888888776433   455555566667


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 009143          307 CLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAP  364 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  364 (542)
                      .+.|++++|.+-|....+-+--.....|+..+ +..+.|+.+.|++...+++++|++.
T Consensus       155 ykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~  211 (459)
T KOG4340|consen  155 YKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQ  211 (459)
T ss_pred             eccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhc
Confidence            78899999999999888764333456676544 4557789999999999999988753

>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=99.04  E-value=2e-08  Score=92.20  Aligned_cols=150  Identities=16%  Similarity=0.071  Sum_probs=85.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----c
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK----Q  344 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~  344 (542)
                      ..+...|++++|++++...      .+.......+..+.+.++++.|.+.++.|.+.  . +..+...+..++..    .
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~-eD~~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--D-EDSILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S-CCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C-CcHHHHHHHHHHHHHHhCc
Confidence            4444556666665555432      24455555666666666666666666666654  2 22333334444332    2


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh-HHHHHH
Q 009143          345 GKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDL-SNAFSI  423 (542)
Q Consensus       345 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~  423 (542)
                      +.+.+|..+|+++... ..+++.+.+.+..++...|++++|.+++.+..+.+.. ++.+...++.+....|+. +.+.+.
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHH
Confidence            3567777777776554 4456666666777777777777777777777665554 556666666666666665 555566


Q ss_pred             HHHHHh
Q 009143          424 RDLMLS  429 (542)
Q Consensus       424 ~~~m~~  429 (542)
                      +.++..
T Consensus       259 l~qL~~  264 (290)
T PF04733_consen  259 LSQLKQ  264 (290)
T ss_dssp             HHHCHH
T ss_pred             HHHHHH
Confidence            666655

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.

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

Probab=99.02  E-value=3.3e-06  Score=79.96  Aligned_cols=366  Identities=16%  Similarity=0.068  Sum_probs=180.4

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD-VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAF  194 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  194 (542)
                      +|.+.|..=..+|...|++++|++=-.+-++.  .|+ ...|+....++.-.|++++|+..|.+-++..+ .+...++-+
T Consensus        34 ~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d~-~n~~L~~gl  110 (539)
T KOG0548|consen   34 TNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKDP-SNKQLKTGL  110 (539)
T ss_pred             CccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcCC-chHHHHHhH
Confidence            36667777777777777777777655555543  344 44677777777777777777777777776554 255566666


Q ss_pred             HHHHHHcCChhhH---HHHHHHHHHC---CCCCChHHHHHHHHHHHhc-------CChhHHHHHHHHHHhCCC-------
Q 009143          195 ITGYCRVNELDKA---LHLFSTMANN---GIRPNRVTHNILVHALCKK-------GLLGDAVKFLGEVLADDD-------  254 (542)
Q Consensus       195 i~~~~~~g~~~~A---~~~~~~m~~~---g~~p~~~~~~~l~~~~~~~-------g~~~~a~~~~~~~~~~~~-------  254 (542)
                      ..++.......+.   -.++..+...   ........|..++..+-+.       .+.+...+....+...+.       
T Consensus       111 ~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~  190 (539)
T KOG0548|consen  111 AQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQLKGVDELLFYASG  190 (539)
T ss_pred             HHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHHhcCccccccccc
Confidence            6655111000000   0011111100   0000111222222221110       011111111111111000       


Q ss_pred             -C----CCCC----------------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 009143          255 -G----KATS----------------------DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC  307 (542)
Q Consensus       255 -~----~~~~----------------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  307 (542)
                       .    ...|                      -..-...+++...+..+++.|.+.+....+..  .+..-++....+|.
T Consensus       191 ~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~  268 (539)
T KOG0548|consen  191 IEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYL  268 (539)
T ss_pred             cccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHH
Confidence             0    0000                      01134556677777777777777777777654  44555566666777


Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCCHHHHH-------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 009143          308 LNGDISSAFAYFCQMLKRGFLPDVITYN-------TLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG  380 (542)
Q Consensus       308 ~~~~~~~A~~~~~~~~~~~~~p~~~~~~-------~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  380 (542)
                      ..|.+.++...-....+.|.. ...-|+       .+..+|.+.++++.+...|.+.......|+..         .+..
T Consensus       269 e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk  338 (539)
T KOG0548|consen  269 ERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLK  338 (539)
T ss_pred             hccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHH
Confidence            777777777666666655422 122222       23334555666777777777655443333221         1122


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHH
Q 009143          381 DIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLA  460 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A  460 (542)
                      ..+++........-.++.. ..-...-...+.+.|++..|+..|.+++... +-|...|...-.+     |.+.|.+..|
T Consensus       339 ~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac-----~~kL~~~~~a  411 (539)
T KOG0548|consen  339 EAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAAC-----YLKLGEYPEA  411 (539)
T ss_pred             HHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHH-----HHHHhhHHHH
Confidence            2333333333322222111 1111122445566677777777777776653 2233444444333     5566777777


Q ss_pred             HHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          461 LQLYDEMLRRGITPD-IITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       461 ~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      ++-.+..++.  .|+ ...|.-=..++....+|++|.+.|++..+.
T Consensus       412 L~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  412 LKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            7766666654  233 233433344445556667777777766665

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

Probab=99.02  E-value=4.7e-06  Score=82.27  Aligned_cols=406  Identities=14%  Similarity=0.044  Sum_probs=256.1

Q ss_pred             HHhcCChHHHHHH----HHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC
Q 009143          128 LCLGGKIGTALWL----RRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE  203 (542)
Q Consensus       128 ~~~~g~~~~A~~~----~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  203 (542)
                      +.-..+.+++...    +.++....+..+...|..+.-++...|+++.+.+.|++....-. -....|+.+...|...|.
T Consensus       294 ~i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~  372 (799)
T KOG4162|consen  294 LIPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGS  372 (799)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhcc
Confidence            3344555666533    33333344556888899999999999999999999999875433 366789999999999999


Q ss_pred             hhhHHHHHHHHHHCCCCC-ChHHHHHHHHHHH-hcCChhHHHHHHHHHHhCCCC-CCCCcHHHHHHHHHHHHhcC-----
Q 009143          204 LDKALHLFSTMANNGIRP-NRVTHNILVHALC-KKGLLGDAVKFLGEVLADDDG-KATSDVITSTILMDSYFKNG-----  275 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g-----  275 (542)
                      -..|..+++.-....-.| +...+......|. +.+..++++.+-.+++..... ........|..+.-+|...-     
T Consensus       373 ~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~  452 (799)
T KOG4162|consen  373 DSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANL  452 (799)
T ss_pred             chHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCC
Confidence            999999998865543224 4444554445554 457788888888777762210 11133455555555554321     


Q ss_pred             ------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 009143          276 ------DKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE  349 (542)
Q Consensus       276 ------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  349 (542)
                            ...++++.+++..+.+ +.|+.....+.--|+..++.+.|.+..++..+.+-.-+...|..+.-.+...+++.+
T Consensus       453 ~seR~~~h~kslqale~av~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~  531 (799)
T KOG4162|consen  453 KSERDALHKKSLQALEEAVQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKE  531 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHH
Confidence                  2457788888888776 455555555666788889999999999999998667788899999989999999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----------------------------CCCCCH
Q 009143          350 ASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEK----------------------------SVVPEP  401 (542)
Q Consensus       350 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----------------------------~~~~~~  401 (542)
                      |+.+.+.....- ..|......-++.-..-++.++++.....++..                            ...-..
T Consensus       532 Al~vvd~al~E~-~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~  610 (799)
T KOG4162|consen  532 ALDVVDAALEEF-GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAI  610 (799)
T ss_pred             HHHHHHHHHHHh-hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccc
Confidence            999988766531 111111111122222346666666555544321                            000011


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC--CCHHHHHH-HHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHH
Q 009143          402 HIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVS--SNVFTFNA-LILAETRGASCNLGHIHLALQLYDEMLRRGITPDIIT  478 (542)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~~~~~~~-ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  478 (542)
                      .++..+..-....  .+.+..-.. +...-+.  |+...+.. .+.......+.+.+..++|...+.+..... .-....
T Consensus       611 s~sr~ls~l~a~~--~~~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~  686 (799)
T KOG4162|consen  611 STSRYLSSLVASQ--LKSAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASV  686 (799)
T ss_pred             hhhHHHHHHHHhh--hhhcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHH
Confidence            1222211111100  000000000 1111112  22111111 000011123667788999998888887752 334577


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHH--HHHHHhhcC
Q 009143          479 YTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARD--IHQKWLLRN  541 (542)
Q Consensus       479 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~--~~~~~l~~~  541 (542)
                      |......+...|.+.+|.+.|......++ .++....++..++.+.|+...|..  ++..+++.|
T Consensus       687 ~~~~G~~~~~~~~~~EA~~af~~Al~ldP-~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d  750 (799)
T KOG4162|consen  687 YYLRGLLLEVKGQLEEAKEAFLVALALDP-DHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD  750 (799)
T ss_pred             HHHhhHHHHHHHhhHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC
Confidence            77888888899999999999999888643 356678899999999999888888  888887765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.01  E-value=2.8e-06  Score=93.18  Aligned_cols=338  Identities=14%  Similarity=0.072  Sum_probs=212.6

Q ss_pred             HHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCC--C----CCC--hHHHHHHHHHHH
Q 009143          163 LCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNG--I----RPN--RVTHNILVHALC  234 (542)
Q Consensus       163 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~----~p~--~~~~~~l~~~~~  234 (542)
                      ....|+++.+...++.+.......+..........+...|++++|..+++.....-  .    .+.  ......+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            44567777776666654211111122223344555667899999999998875431  0    111  122223345566


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHH
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATS--DVITSTILMDSYFKNGDKFQALALWNDMFQK----NI-QTDIVAYNVLINGFC  307 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~  307 (542)
                      ..|++++|...+++........ ..  .....+.+...+...|++++|...+++....    |. .....++..+...+.
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~-~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLT-WYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            8999999999999988743211 01  1245567777888999999999999888653    11 112245566777888


Q ss_pred             hCCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCC--ChhhHHHHHHHH
Q 009143          308 LNGDISSAFAYFCQMLKR----GFL--P-DVITYNTLLNCLCKQGKLDEASHFYGVLSKTG--VAP--DQISYKTIIQGL  376 (542)
Q Consensus       308 ~~~~~~~A~~~~~~~~~~----~~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~--~~~~~~~li~~~  376 (542)
                      ..|++++|...+++....    +..  + ....+..+...+...|++++|...+.+.....  ..+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999999887653    211  1 22334555667778899999999988775531  112  233444456677


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC-CHHHH-----HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH---HHHHHHHhh
Q 009143          377 CIHGDIVKAREFLLSMLEKSVVP-EPHIW-----NVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFT---FNALILAET  447 (542)
Q Consensus       377 ~~~g~~~~A~~~~~~~~~~~~~~-~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~---~~~ll~~~~  447 (542)
                      ...|+.++|.+.+.+........ ....+     ...+..+...|+.+.|...+..............   +..+..   
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~---  699 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR---  699 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH---
Confidence            78999999999988875421110 11111     1122445568999999998877654221111111   112222   


Q ss_pred             cccccccCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHcC
Q 009143          448 RGASCNLGHIHLALQLYDEMLRR----GITPD-IITYTELIKGHCARGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       448 ~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  506 (542)
                        .+...|+.++|...+++....    |..++ ..+...+..++.+.|+.++|...+.+..+..
T Consensus       700 --~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        700 --AQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             --HHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence              256779999999999988762    33332 2466777888999999999999999988753

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

Probab=98.98  E-value=1.7e-07  Score=89.27  Aligned_cols=251  Identities=15%  Similarity=0.096  Sum_probs=189.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC
Q 009143          231 HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG  310 (542)
Q Consensus       231 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  310 (542)
                      .-+.+.|++.+|.-.|+..++.+|    .+..+|..|.......++-..|+..+++..+.+ +.+....-.|.-.|...|
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP----~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg  367 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDP----QHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEG  367 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhCh----HHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhh
Confidence            345688999999999999999888    899999999999999999999999999999886 677888889999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCC--------CHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCChhhHHHHHHHHHhcCC
Q 009143          311 DISSAFAYFCQMLKRGFLP--------DVITYNTLLNCLCKQGKLDEASHFYGVLS-KTGVAPDQISYKTIIQGLCIHGD  381 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~~~~p--------~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~  381 (542)
                      .-.+|+..++..++...+-        +...-..  ..+.....+....++|-++. ..+..+|+.++..|.-.|.-.|+
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            9999999999887653110        0000000  11111222334455554444 44545788888888888999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHhhcccccccCChHH
Q 009143          382 IVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV--FTFNALILAETRGASCNLGHIHL  459 (542)
Q Consensus       382 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~g~~~~  459 (542)
                      +++|.+.|+.++...+. |...||.|...++...+.++|+..|.+.++  +.|+.  .-||.-|.      |...|.+++
T Consensus       446 fdraiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS------~mNlG~ykE  516 (579)
T KOG1125|consen  446 FDRAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGIS------CMNLGAYKE  516 (579)
T ss_pred             HHHHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhh------hhhhhhHHH
Confidence            99999999999998776 899999999999999999999999999998  46664  45777775      678899999


Q ss_pred             HHHHHHHHHhC---------CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 009143          460 ALQLYDEMLRR---------GITPDIITYTELIKGHCARGNMKEAEE  497 (542)
Q Consensus       460 A~~~~~~~~~~---------g~~p~~~~~~~li~~~~~~g~~~~A~~  497 (542)
                      |.+.|-+.+..         +..++...|.+|-.++.-.++.+-+.+
T Consensus       517 A~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  517 AVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            99998877652         111233466666666666666664443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.96  E-value=1.5e-05  Score=76.54  Aligned_cols=297  Identities=14%  Similarity=0.099  Sum_probs=163.9

Q ss_pred             HHHHHcCChhhHHHHHHHHHHCC-------CCC--C----hH-HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH
Q 009143          196 TGYCRVNELDKALHLFSTMANNG-------IRP--N----RV-THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDV  261 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g-------~~p--~----~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  261 (542)
                      ..+...|++.+|+++++...+.+       -.-  +    .. .-..|.-++-..|+.++|.+++...++..+...+.-.
T Consensus       183 c~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~A  262 (652)
T KOG2376|consen  183 CILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSLA  262 (652)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHHH
Confidence            34556788888888888773221       000  0    01 1122444555788888888888888888772222222


Q ss_pred             HHHHHHHHHHHhcCCHH-HHHHHHHHHHHCCC----------CCCHHHH-HHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Q 009143          262 ITSTILMDSYFKNGDKF-QALALWNDMFQKNI----------QTDIVAY-NVLINGFCLNGDISSAFAYFCQMLKRGFLP  329 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~-~a~~~~~~~~~~~~----------~~~~~~~-~~li~~~~~~~~~~~A~~~~~~~~~~~~~p  329 (542)
                      ..-|.|+..-....-.+ .++..++.......          .-..... +.++..|  .+..+.+.++......  ..|
T Consensus       263 v~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--tnk~~q~r~~~a~lp~--~~p  338 (652)
T KOG2376|consen  263 VAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--TNKMDQVRELSASLPG--MSP  338 (652)
T ss_pred             HHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhHHHHHHHHHhCCc--cCc
Confidence            33444443322222122 12222222211100          0011111 1122222  3344444444433222  233


Q ss_pred             CHHHHHHHHHH-HHh-cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH--------HHHhCCCCC
Q 009143          330 DVITYNTLLNC-LCK-QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLL--------SMLEKSVVP  399 (542)
Q Consensus       330 ~~~~~~~li~~-~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~--------~~~~~~~~~  399 (542)
                      .. .+..++.. ... ......+..++....+....-...+.-..+......|+++.|.+++.        .+.+.+..|
T Consensus       339 ~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P  417 (652)
T KOG2376|consen  339 ES-LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP  417 (652)
T ss_pred             hH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh
Confidence            33 33334333 322 22467777777776665333234566667777888999999999999        555555444


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHH
Q 009143          400 EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF--GVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDII  477 (542)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  477 (542)
                        .+-.++...+.+.++-+.|..++......  .-.+.......++.-.+ ..-.+.|+.++|..+++++.+.. ++|..
T Consensus       418 --~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa-~f~lr~G~~~ea~s~leel~k~n-~~d~~  493 (652)
T KOG2376|consen  418 --GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAA-EFKLRHGNEEEASSLLEELVKFN-PNDTD  493 (652)
T ss_pred             --hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHh-HHHHhcCchHHHHHHHHHHHHhC-CchHH
Confidence              44556677778888877788888776652  11122223333332211 12445699999999999999853 56888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKI  502 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m  502 (542)
                      +...++.+|++. +++.|..+-..+
T Consensus       494 ~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  494 LLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            999999999887 678887776554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.95  E-value=7e-06  Score=81.44  Aligned_cols=343  Identities=14%  Similarity=0.115  Sum_probs=190.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CC--------CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQK-GT--------VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN  187 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~--------~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  187 (542)
                      +...|..+.+.+.+.++++-|.-.+..|... |.        .|+ ..-..+.......|.+++|..+|++..+      
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR------  828 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR------  828 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH------
Confidence            4557999999999999988887666655432 11        121 2223334445677999999999888754      


Q ss_pred             HHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHH----------HhCCCCC-
Q 009143          188 CATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEV----------LADDDGK-  256 (542)
Q Consensus       188 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~----------~~~~~~~-  256 (542)
                         |..|=..|-..|.|++|.++-+.=.+..   =..||......+-..++.+.|++.|++.          +...+.. 
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence               3345556667899999998876543322   2346666666666778888888777643          2222200 


Q ss_pred             -----CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH
Q 009143          257 -----ATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV  331 (542)
Q Consensus       257 -----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~  331 (542)
                           ...|...|.-...-+-..|+.+.|+.+|....+         |..+++..|-.|+.++|-++-++      .-|.
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~e------sgd~  967 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEE------SGDK  967 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHh------cccH
Confidence                 002334445555555566777777777766543         34444555555666555554433      1244


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----------CCC------------CChh-----------hHHHHHHHHHh
Q 009143          332 ITYNTLLNCLCKQGKLDEASHFYGVLSKT----------GVA------------PDQI-----------SYKTIIQGLCI  378 (542)
Q Consensus       332 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~----------~~~------------~~~~-----------~~~~li~~~~~  378 (542)
                      .....+.+.|-..|++.+|..+|.+....          +.+            .|..           -...-+..|-+
T Consensus       968 AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g~~~~~AVmLYHk 1047 (1416)
T KOG3617|consen  968 AACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEELGGYAHKAVMLYHK 1047 (1416)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcchhhhHHHHHHHh
Confidence            44445556666666666666555443211          100            0000           00111122334


Q ss_pred             cCCHHHHHHHHHH--------H--HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc
Q 009143          379 HGDIVKAREFLLS--------M--LEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETR  448 (542)
Q Consensus       379 ~g~~~~A~~~~~~--------~--~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~  448 (542)
                      .|.+.+|+++--+        +  ...+...|+...+.-.+.++...++++|..++-...+         |...+.    
T Consensus      1048 AGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~Alq---- 1114 (1416)
T KOG3617|consen 1048 AGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQ---- 1114 (1416)
T ss_pred             hcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHH----
Confidence            4444444433211        1  1123344666777777777777778888777766554         223332    


Q ss_pred             ccccccCChHHHHHHHHHHHh-CCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          449 GASCNLGHIHLALQLYDEMLR-RGITPDI----ITYTELIKGHCARGNMKEAEEVFAKI  502 (542)
Q Consensus       449 ~~~~~~g~~~~A~~~~~~~~~-~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m  502 (542)
                        .|+..++.-..++-+.|-- ..-.|+.    .....+.+.|.++|.+..|.+-|.+.
T Consensus      1115 --lC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1115 --LCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred             --HHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhh
Confidence              3444555555555444432 2123443    34567778888999988887766543

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

Probab=98.92  E-value=5e-08  Score=89.52  Aligned_cols=82  Identities=18%  Similarity=0.199  Sum_probs=33.9

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHH
Q 009143          276 DKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKL-DEASHFY  354 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~  354 (542)
                      .+.+|..+|+++.+. .++++.+.+.+..++...|++++|.+++.+....+ +-++.+...++.+....|+. +.+.+.+
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            344455555554332 23444444444444445555555555444444332 22333444444444444444 3334444


Q ss_pred             HHHHH
Q 009143          355 GVLSK  359 (542)
Q Consensus       355 ~~~~~  359 (542)
                      .++..
T Consensus       260 ~qL~~  264 (290)
T PF04733_consen  260 SQLKQ  264 (290)
T ss_dssp             HHCHH
T ss_pred             HHHHH
Confidence            44433

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=98.90  E-value=3.6e-07  Score=87.09  Aligned_cols=253  Identities=15%  Similarity=0.143  Sum_probs=118.0

Q ss_pred             HHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHH
Q 009143          163 LCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDA  242 (542)
Q Consensus       163 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a  242 (542)
                      +.+.|++.+|.-.|+...+..|. +...|..|.......++-..|+..+++..+.. +-|......|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            34455555555555555554442 45555555555555555555555555555432 11334444555555555555555


Q ss_pred             HHHHHHHHhCCCCCC---C--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 009143          243 VKFLGEVLADDDGKA---T--SDVITSTILMDSYFKNGDKFQALALWNDMFQ-KNIQTDIVAYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       243 ~~~~~~~~~~~~~~~---~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~~~~~~A~  316 (542)
                      .+.++..+...+...   .  .+...-..  ..+.....+....++|-++.. .+..+|+.....|.-.|.-.|++++|.
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            555555443321000   0  00000000  111111222233333333332 222345555555555555666666666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          317 AYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPD-QISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       317 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      +.|+.++... +-|...||.|...++...+.++|+..|.+..+.  +|+ +.+...|.-.|...|.+++|.+.|-.++..
T Consensus       451 Dcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  451 DCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            6666655542 224455666666666666666666666665552  333 223333444555566666666555544321


Q ss_pred             ---------CCCCCHHHHHHHHHHHHhcCChHHHHH
Q 009143          396 ---------SVVPEPHIWNVIIDGYGRCGDLSNAFS  422 (542)
Q Consensus       396 ---------~~~~~~~~~~~li~~~~~~g~~~~A~~  422 (542)
                               ...++...|.+|=.++.-.++.+-+.+
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence                     112233455555555555555554433

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

Probab=98.89  E-value=1.7e-06  Score=90.32  Aligned_cols=224  Identities=13%  Similarity=0.081  Sum_probs=165.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-----ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVP-----DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATY  191 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  191 (542)
                      +...|-..+....+.++.+.|++++++.+.. +.+     -...|.++++.-..-|.-+...++|+++.+..  .....|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHH
Confidence            4457888888888888888888888888764 222     23467777777777787788888888886632  234567


Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                      ..|...|.+.+++++|.++++.|.+. +......|...+..+.+.++-+.|..++.++++.-+..  ..+....-.+..-
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~--eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQ--EHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchh--hhHHHHHHHHHHH
Confidence            78888888888888888888888765 34566788888888888888888888888888766533  4666777777788


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCCH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV--ITYNTLLNCLCKQGKL  347 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~li~~~~~~g~~  347 (542)
                      .+.|+.+.+..+|+..+... |--...|+..++.-.+.|+.+.+..+|++....++.|-.  ..|...+..=-+.|+-
T Consensus      1611 Fk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCch
Confidence            88888888888888887654 456677888888888888888888888888887766542  3344444433334443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.88  E-value=8.6e-05  Score=70.66  Aligned_cols=409  Identities=11%  Similarity=0.100  Sum_probs=239.4

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHH
Q 009143          115 ETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAF  194 (542)
Q Consensus       115 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  194 (542)
                      +-|..+|+.||+-+..+ .+++++..++++..- .+-....|..-|..-.+..+++....+|.+.+..-  .+...|...
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHH
Confidence            35888999999887665 999999999999875 34456788899999999999999999999988644  467788887


Q ss_pred             HHHHHHc-CChhh----HHHHHHHH-HHCCCCCCh-HHHHHHHHH---------HHhcCChhHHHHHHHHHHhCCCCCCC
Q 009143          195 ITGYCRV-NELDK----ALHLFSTM-ANNGIRPNR-VTHNILVHA---------LCKKGLLGDAVKFLGEVLADDDGKAT  258 (542)
Q Consensus       195 i~~~~~~-g~~~~----A~~~~~~m-~~~g~~p~~-~~~~~l~~~---------~~~~g~~~~a~~~~~~~~~~~~~~~~  258 (542)
                      +..--+. ++...    -.+.|+-. .+.|+.+-. ..|+..+..         +....+++...+++++++....    
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm----  168 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPM----  168 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCcc----
Confidence            7754433 33322    22233332 344544332 233333322         2334466778888888876543    


Q ss_pred             CcH-------HHHHHHHHHHH-------hcCCHHHHHHHHHHHHH--CCCCCCHHH---------------HHHHHHHHH
Q 009143          259 SDV-------ITSTILMDSYF-------KNGDKFQALALWNDMFQ--KNIQTDIVA---------------YNVLINGFC  307 (542)
Q Consensus       259 ~~~-------~~~~~l~~~~~-------~~g~~~~a~~~~~~~~~--~~~~~~~~~---------------~~~li~~~~  307 (542)
                      .+.       ..|..-++...       +...+..|.++++++..  +|+.....+               |-.+|.-=.
T Consensus       169 ~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEk  248 (656)
T KOG1914|consen  169 HNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEK  248 (656)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHh
Confidence            222       12222222221       12345567777766643  232211111               333332211


Q ss_pred             hCC------CH--HHHHHHHHHHH-HcCCCCCHHH-H----HHHHHHHHhcCC-------HHHHHHHHHHHHHCCCCCCh
Q 009143          308 LNG------DI--SSAFAYFCQML-KRGFLPDVIT-Y----NTLLNCLCKQGK-------LDEASHFYGVLSKTGVAPDQ  366 (542)
Q Consensus       308 ~~~------~~--~~A~~~~~~~~-~~~~~p~~~~-~----~~li~~~~~~g~-------~~~A~~~~~~~~~~~~~~~~  366 (542)
                      ..+      ..  ....-.+++.. -.+..|+... +    ...-+.+...|+       .+++..+++.....-..-+.
T Consensus       249 sNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~  328 (656)
T KOG1914|consen  249 SNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENK  328 (656)
T ss_pred             cCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence            111      00  01111222211 1222332211 0    111112233333       34445555544433222223


Q ss_pred             hhHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 009143          367 ISYKTIIQGLCI---HGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSS-NVFTFNAL  442 (542)
Q Consensus       367 ~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~l  442 (542)
                      ..|..+.+.--.   .+..+....++.+++..-..--..+|..++..-.+..-...|..+|.+..+.+..+ ++..++++
T Consensus       329 ~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~  408 (656)
T KOG1914|consen  329 LLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAAL  408 (656)
T ss_pred             HHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHH
Confidence            333333321111   11255566666666654333234567888888888888899999999999877777 67778888


Q ss_pred             HHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCC--hhHHHHHHHH
Q 009143          443 ILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAID--HIPFRILKKR  520 (542)
Q Consensus       443 l~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~--~~~~~~l~~~  520 (542)
                      +.-      ...++.+-|.++|+-=++. ...++.--...++-+...|+-..|..+|++....++.+|  ..+|..+++-
T Consensus       409 mEy------~cskD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~y  481 (656)
T KOG1914|consen  409 MEY------YCSKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEY  481 (656)
T ss_pred             HHH------HhcCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHH
Confidence            874      3458888999999865553 122334445677788888888999999999988765554  4689999988


Q ss_pred             HHhcCChhHHHHHHHHHh
Q 009143          521 YRRMKESDKARDIHQKWL  538 (542)
Q Consensus       521 ~~~~g~~~~A~~~~~~~l  538 (542)
                      -.+-|+.+.+.++-+++.
T Consensus       482 ES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  482 ESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             HHhcccHHHHHHHHHHHH
Confidence            888899988888877764

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

Probab=98.87  E-value=2e-06  Score=89.91  Aligned_cols=210  Identities=13%  Similarity=0.058  Sum_probs=159.3

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADD-DGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYN  300 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  300 (542)
                      ....|...+......++.++|.++.++++..= ......-...|.++++....-|.-+...++|+++.+..  .....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            45678888888888899999999988887643 11111334578888888888888888888999888752  3345678


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHhc
Q 009143          301 VLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA-PDQISYKTIIQGLCIH  379 (542)
Q Consensus       301 ~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~  379 (542)
                      .|...|.+.+.+++|.++|+.|.+. +.-....|...+..+.+..+-+.|..++.+..+.=.+ -......-.+..-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            8888899999999999999998876 3456778888888888888888888888887774211 1233444455556678


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN  435 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (542)
                      |+.+++..+|+..+...++ -...|+..++.-.++|+.+.+..+|++....++.|-
T Consensus      1614 GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             CCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            8999999999888877655 677889999998999999999999999888766653

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.86  E-value=1.1e-06  Score=90.88  Aligned_cols=239  Identities=10%  Similarity=0.027  Sum_probs=169.7

Q ss_pred             CCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhH
Q 009143          114 LET-DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDV-LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATY  191 (542)
Q Consensus       114 ~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  191 (542)
                      ..| +...|..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+++..+                
T Consensus        26 ~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv----------------   87 (906)
T PRK14720         26 YSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL----------------   87 (906)
T ss_pred             CCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh----------------
Confidence            344 5668999999999999999999999977765  3443 3444444567777776666443                


Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                       .++.......++.-+..+...|...  .-+...+..+..+|-+.|+.+++..+++++++.++    .++.+.|.+...|
T Consensus        88 -~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~----~n~~aLNn~AY~~  160 (906)
T PRK14720         88 -NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADR----DNPEIVKKLATSY  160 (906)
T ss_pred             -hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc----ccHHHHHHHHHHH
Confidence             2333333444554444455555553  23556888899999999999999999999999887    8999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD-VITYNTLLNCLCKQGKLDEA  350 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  350 (542)
                      ... ++++|.+++.+....               +...+++.++.+++.++...  .|+ ...+..+.+           
T Consensus       161 ae~-dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~--~~~d~d~f~~i~~-----------  211 (906)
T PRK14720        161 EEE-DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHY--NSDDFDFFLRIER-----------  211 (906)
T ss_pred             HHh-hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhc--CcccchHHHHHHH-----------
Confidence            999 999999999888753               66677888889999888876  333 223332222           


Q ss_pred             HHHHHHHHHC-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 009143          351 SHFYGVLSKT-GVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYG  412 (542)
Q Consensus       351 ~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  412 (542)
                           .+... |..--+.++-.+-..|-..++++++..+++.+++.... |.....-++.+|.
T Consensus       212 -----ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        212 -----KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             -----HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence                 22221 22223445666667777888888999999998887766 6777777777776

>PLN02789 farnesyltranstransferase

Probab=98.84  E-value=5.2e-06  Score=77.36  Aligned_cols=214  Identities=14%  Similarity=0.075  Sum_probs=147.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcC-ChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIG-DLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      +..+-..+...++.++|+.+..++++.. +-+..+|+.....+.+.| ++++++..++++.+..++ +..+|+.....+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHH
Confidence            3444445566788889999999988863 224456776666777777 578999999998887764 5667776666666


Q ss_pred             HcCCh--hhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc---
Q 009143          200 RVNEL--DKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN---  274 (542)
Q Consensus       200 ~~g~~--~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  274 (542)
                      +.|+.  ++++++++++.+... -|..+|....-++...|+++++++.++++++.++    .+..+|+.....+.+.   
T Consensus       118 ~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~----~N~sAW~~R~~vl~~~~~l  192 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV----RNNSAWNQRYFVITRSPLL  192 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC----CchhHHHHHHHHHHhcccc
Confidence            66653  677888888877643 3677888888888888888889999998888877    7777787777666554   


Q ss_pred             CCH----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009143          275 GDK----FQALALWNDMFQKNIQTDIVAYNVLINGFCLN----GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK  343 (542)
Q Consensus       275 g~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  343 (542)
                      |..    ++.+....+++... +-|...|+.+...+...    ++..+|.+.+.+..+.+ ..+......|++.|+.
T Consensus       193 ~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        193 GGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            222    45666666666554 56677777777777662    33455777776665543 3355666667776664

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.84  E-value=8.5e-06  Score=82.63  Aligned_cols=129  Identities=13%  Similarity=0.100  Sum_probs=74.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHH------------------------
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHV------------------------  175 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~------------------------  175 (542)
                      .|..|...|+...+...|.+.|++.-+.. ..+...+..+.+.|....+++.|..+                        
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            56666666666666666666666665542 22444455555555555555555444                        


Q ss_pred             ------------HHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCChhHH
Q 009143          176 ------------IREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR-VTHNILVHALCKKGLLGDA  242 (542)
Q Consensus       176 ------------~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~a  242 (542)
                                  |+...+..| .|...|..++.+|.+.|++..|+++|.+....  .|+. ..---..-.-+..|++.+|
T Consensus       573 Lea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHHH
Confidence                        444444333 36667777777777777777777777776653  3332 1111222334566777777


Q ss_pred             HHHHHHHHhC
Q 009143          243 VKFLGEVLAD  252 (542)
Q Consensus       243 ~~~~~~~~~~  252 (542)
                      ...+..++..
T Consensus       650 ld~l~~ii~~  659 (1238)
T KOG1127|consen  650 LDALGLIIYA  659 (1238)
T ss_pred             HHHHHHHHHH
Confidence            7777766653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.83  E-value=0.00017  Score=73.66  Aligned_cols=328  Identities=14%  Similarity=0.131  Sum_probs=200.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGT--VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAF  194 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  194 (542)
                      |+..-+..+.++...+-+.+-+++++++.-...  ..+...-|.|+-...+ -+..+..+..+++-.... |+      +
T Consensus       983 dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa-~~------i 1054 (1666)
T KOG0985|consen  983 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDA-PD------I 1054 (1666)
T ss_pred             ChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCc-hh------H
Confidence            555556677788888888888888888764311  1122222333333333 344555566666543222 33      2


Q ss_pred             HHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          195 ITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       195 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      ...+...+-+++|..+|++..     .+......|+.   .-+.++.|.++-++.         ....+|..+..+-.+.
T Consensus      1055 a~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~---------n~p~vWsqlakAQL~~ 1117 (1666)
T KOG0985|consen 1055 AEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERC---------NEPAVWSQLAKAQLQG 1117 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhh---------CChHHHHHHHHHHHhc
Confidence            334455666788888877643     34555555554   346667777666655         5567888888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 009143          275 GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFY  354 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  354 (542)
                      |.+.+|.+-|-+.      .|+..|.-+++...+.|.+++-.+++....+..-.|..  =+.||-+|++.+++.+.++++
T Consensus      1118 ~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1118 GLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             CchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHh
Confidence            8888888776543      36777888889999999999988888877776555544  346788888888887766654


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 009143          355 GVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSS  434 (542)
Q Consensus       355 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  434 (542)
                             .-|+......+.+-|...|.++.|.-++..         +..|..|...+...|++..|...-++.      .
T Consensus      1190 -------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKA------n 1247 (1666)
T KOG0985|consen 1190 -------AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKA------N 1247 (1666)
T ss_pred             -------cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhc------c
Confidence                   236676677777777777777777666543         334666777777777777776554433      2


Q ss_pred             CHHHHHHHHHHhh-------------------------cccccccCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh
Q 009143          435 NVFTFNALILAET-------------------------RGASCNLGHIHLALQLYDEMLRRGIT-PDIITYTELIKGHCA  488 (542)
Q Consensus       435 ~~~~~~~ll~~~~-------------------------~~~~~~~g~~~~A~~~~~~~~~~g~~-p~~~~~~~li~~~~~  488 (542)
                      +..||..+-.+|.                         +..|-..|-+++-+.+++....  ++ .-...|+-|.-.|.+
T Consensus      1248 s~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LG--LERAHMgmfTELaiLYsk 1325 (1666)
T KOG0985|consen 1248 STKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLG--LERAHMGMFTELAILYSK 1325 (1666)
T ss_pred             chhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhc--hhHHHHHHHHHHHHHHHh
Confidence            3345554444443                         2224455666666666554432  22 122445555555544


Q ss_pred             cCCHHHHHHHHHHH
Q 009143          489 RGNMKEAEEVFAKI  502 (542)
Q Consensus       489 ~g~~~~A~~~~~~m  502 (542)
                      - ++++..+.++-.
T Consensus      1326 y-kp~km~EHl~LF 1338 (1666)
T KOG0985|consen 1326 Y-KPEKMMEHLKLF 1338 (1666)
T ss_pred             c-CHHHHHHHHHHH
Confidence            2 445544444433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.80  E-value=1.5e-05  Score=80.83  Aligned_cols=185  Identities=14%  Similarity=0.057  Sum_probs=140.8

Q ss_pred             CChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHH
Q 009143          132 GKIGTALWLRRKMIQKGTVPD-VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHL  210 (542)
Q Consensus       132 g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  210 (542)
                      .+...|...|-+..+..  |+ ...|..|...|+...+..+|.+.|+...+.++ -+...+......|++..+++.|..+
T Consensus       472 K~~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hhHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHH
Confidence            34667777776666642  33 45789999999998899999999999998776 4788899999999999999999998


Q ss_pred             HHHHHHCC-CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          211 FSTMANNG-IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       211 ~~~m~~~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      .-...+.. ...-...|....-.|.+.++...|..-|+..+..+|    .|...|..++.+|...|++..|.++|.+...
T Consensus       549 ~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP----kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~  624 (1238)
T KOG1127|consen  549 CLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP----KDYNLWLGLGEAYPESGRYSHALKVFTKASL  624 (1238)
T ss_pred             HHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc----hhHHHHHHHHHHHHhcCceehHHHhhhhhHh
Confidence            43332211 011122344455567788999999999999999887    8999999999999999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       290 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      .. |.+...-.......+..|.+.+|+..+.....
T Consensus       625 Lr-P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  625 LR-PLSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             cC-cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            64 22333333344456778999999988887654

>PLN02789 farnesyltranstransferase

Probab=98.79  E-value=1.1e-05  Score=75.26  Aligned_cols=205  Identities=12%  Similarity=0.089  Sum_probs=138.9

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC-ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCh--hH
Q 009143          165 KIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN-ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLL--GD  241 (542)
Q Consensus       165 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~--~~  241 (542)
                      ..++.++|..+..++.+..|. +..+|+....++...| ++++++..++++.+...+ +..+|+...-.+.+.|+.  ++
T Consensus        49 ~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~  126 (320)
T PLN02789         49 SDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANK  126 (320)
T ss_pred             cCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHH
Confidence            346788999999998887663 5667777777777777 578999999988876432 455666655555666653  67


Q ss_pred             HHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC---CCH----HH
Q 009143          242 AVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN---GDI----SS  314 (542)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~----~~  314 (542)
                      +..+++++++.++    .+..+|+.....+...|+++++++.++++++.+ +.|..+|+.....+.+.   |..    ++
T Consensus       127 el~~~~kal~~dp----kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        127 ELEFTRKILSLDA----KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             HHHHHHHHHHhCc----ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHH
Confidence            7888888888777    788889888888888899999999999998876 55667777666555444   222    35


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 009143          315 AFAYFCQMLKRGFLPDVITYNTLLNCLCKQ----GKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI  378 (542)
Q Consensus       315 A~~~~~~~~~~~~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  378 (542)
                      .++...++.... +-+...|+-+...+...    ++..+|...+.+..+.+ +.+......|++.|+.
T Consensus       202 el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        202 ELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            666665666552 33556666666666552    33445666666655532 2244555566666654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.77  E-value=3.6e-05  Score=75.65  Aligned_cols=327  Identities=16%  Similarity=0.074  Sum_probs=167.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC
Q 009143          123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN  202 (542)
Q Consensus       123 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  202 (542)
                      ..|..|....++++|+.+-+-   .|.+.-...-.+.++.+...|+-++|-    ++.+.    +..+ -+.|+.|.+.|
T Consensus       562 ~aigmy~~lhkwde~i~lae~---~~~p~~eklk~sy~q~l~dt~qd~ka~----elk~s----dgd~-laaiqlyika~  629 (1636)
T KOG3616|consen  562 EAIGMYQELHKWDEAIALAEA---KGHPALEKLKRSYLQALMDTGQDEKAA----ELKES----DGDG-LAAIQLYIKAG  629 (1636)
T ss_pred             HHHHHHHHHHhHHHHHHHHHh---cCChHHHHHHHHHHHHHHhcCchhhhh----hhccc----cCcc-HHHHHHHHHcC
Confidence            345556666666666655332   222211223344555566667777763    33221    1111 24567788888


Q ss_pred             ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCC-------------------CCCCCCcHH-
Q 009143          203 ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADD-------------------DGKATSDVI-  262 (542)
Q Consensus       203 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------------------~~~~~~~~~-  262 (542)
                      .+.+|......=..  +..|......+..++.+..-++.|-.+|+++..-+                   ...+|..++ 
T Consensus       630 ~p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~  707 (1636)
T KOG3616|consen  630 KPAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVK  707 (1636)
T ss_pred             CchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhh
Confidence            87777665422111  22344444444444443333333333333332100                   000001111 


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLC  342 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  342 (542)
                      .-......+...|+++.|...|-+..         ..-.-+.+......|.+|+.+++.++.+.  .-..-|..+...|.
T Consensus       708 lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhya  776 (1636)
T KOG3616|consen  708 LEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYA  776 (1636)
T ss_pred             HHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhc
Confidence            11122233334444444444443321         12233455566677788888887777653  23345666777788


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 009143          343 KQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFS  422 (542)
Q Consensus       343 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  422 (542)
                      ..|+++.|.++|.+.         ..++-.|.+|.+.|+++.|.++-.+..  |+......|-+-..-+-++|++.+|.+
T Consensus       777 n~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeq  845 (1636)
T KOG3616|consen  777 NKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQ  845 (1636)
T ss_pred             cchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhh
Confidence            888888888877542         234556777888888888877765543  334445556666666677777777776


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          423 IRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKI  502 (542)
Q Consensus       423 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  502 (542)
                      +|-.+.    .|+..     |.     +|-+.|..++.+++.++-..   ..-..|...+..-|-..|+.++|..-|-+.
T Consensus       846 lyiti~----~p~~a-----iq-----mydk~~~~ddmirlv~k~h~---d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  846 LYITIG----EPDKA-----IQ-----MYDKHGLDDDMIRLVEKHHG---DHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             eeEEcc----CchHH-----HH-----HHHhhCcchHHHHHHHHhCh---hhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            654433    23321     11     14455666666655544321   111244555666666777777777665443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.75  E-value=1.8e-06  Score=77.97  Aligned_cols=186  Identities=12%  Similarity=0.054  Sum_probs=127.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-C-ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH--HhHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTV-P-DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNC--ATYN  192 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~  192 (542)
                      ....+..+...+.+.|+++.|...|++++..... | ...++..+...+.+.|++++|...++++.+..|....  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            4557888888999999999999999999875311 1 1246778889999999999999999999886654222  2455


Q ss_pred             HHHHHHHHc--------CChhhHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHH
Q 009143          193 AFITGYCRV--------NELDKALHLFSTMANNGIRPNR-VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVIT  263 (542)
Q Consensus       193 ~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  263 (542)
                      .+..++.+.        |++++|.+.++.+.+.  .|+. ..+..+.... .   ...       .          ....
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~-~---~~~-------~----------~~~~  168 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD-Y---LRN-------R----------LAGK  168 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH-H---HHH-------H----------HHHH
Confidence            555555554        6788888888888765  2332 2222221110 0   000       0          0011


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          264 STILMDSYFKNGDKFQALALWNDMFQKNI--QTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       264 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      ...+...+.+.|++++|...++...+...  +.....+..+..++.+.|++++|...++.+...
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            23566778888899999888888877631  234567888888888899999998888887665

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).

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.75  E-value=7.1e-05  Score=76.21  Aligned_cols=335  Identities=13%  Similarity=0.121  Sum_probs=220.9

Q ss_pred             HHHHHHHhCCCC--CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCC--CCCCHHhHHHHHHHHHHcCChhhHHHHHHHH
Q 009143          139 WLRRKMIQKGTV--PDVLTHNYLVNELCKIGDLEKADHVIREMSEMR--PSPNCATYNAFITGYCRVNELDKALHLFSTM  214 (542)
Q Consensus       139 ~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  214 (542)
                      ++.++.++.+++  .|+...+..+.++...+-..+-+++++++.-..  ..-+...-|.||-...+ -+..++.++.+++
T Consensus       968 qLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rL 1046 (1666)
T KOG0985|consen  968 QLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRL 1046 (1666)
T ss_pred             HHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHh
Confidence            344444443322  345556667777788888888888888775321  11123334445444443 3445566666666


Q ss_pred             HHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 009143          215 ANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQT  294 (542)
Q Consensus       215 ~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  294 (542)
                      ..... |+      +...+...+-+++|..+|++.-        .+..+.+.|+.-   -++.+.|.+.-++.-      
T Consensus      1047 dnyDa-~~------ia~iai~~~LyEEAF~ifkkf~--------~n~~A~~VLie~---i~~ldRA~efAe~~n------ 1102 (1666)
T KOG0985|consen 1047 DNYDA-PD------IAEIAIENQLYEEAFAIFKKFD--------MNVSAIQVLIEN---IGSLDRAYEFAERCN------ 1102 (1666)
T ss_pred             ccCCc-hh------HHHHHhhhhHHHHHHHHHHHhc--------ccHHHHHHHHHH---hhhHHHHHHHHHhhC------
Confidence            54321 12      3344556677788888887652        455555555543   456677766655543      


Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 009143          295 DIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQ  374 (542)
Q Consensus       295 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  374 (542)
                      .+..|..+..+-.+.|.+.+|++-|-+.      .|+..|..+++...+.|.+++-.+.+....+....|..  -+.|+-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHH
Confidence            5567999999999999999999887543      37788999999999999999999999888777655544  457888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccccccc
Q 009143          375 GLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNL  454 (542)
Q Consensus       375 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  454 (542)
                      +|++.++..+-.+++.       .||......+.+-|...|.++.|.-+|.....         |..+...     +.+.
T Consensus      1175 AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN---------~a~La~T-----LV~L 1233 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSN---------FAKLAST-----LVYL 1233 (1666)
T ss_pred             HHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhh---------HHHHHHH-----HHHH
Confidence            9999999877665542       37888888999999999999999888765542         3333332     4455


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHH
Q 009143          455 GHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIH  534 (542)
Q Consensus       455 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~  534 (542)
                      |+++.|.+.-++.-      +..||..+-.+|...+.+.-|.     |....+.....-...++.-|...|-+++-+.++
T Consensus      1234 geyQ~AVD~aRKAn------s~ktWK~VcfaCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~ 1302 (1666)
T KOG0985|consen 1234 GEYQGAVDAARKAN------STKTWKEVCFACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEELISLL 1302 (1666)
T ss_pred             HHHHHHHHHhhhcc------chhHHHHHHHHHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHH
Confidence            77777766554432      4567877777777776665442     333334444555666666777777777776666


Q ss_pred             HHHh
Q 009143          535 QKWL  538 (542)
Q Consensus       535 ~~~l  538 (542)
                      +..|
T Consensus      1303 Ea~L 1306 (1666)
T KOG0985|consen 1303 EAGL 1306 (1666)
T ss_pred             Hhhh
Confidence            6553

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.73  E-value=1.3e-05  Score=79.51  Aligned_cols=334  Identities=17%  Similarity=0.140  Sum_probs=208.2

Q ss_pred             ChhhHHHHHHH--HHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHC-C-------C-C
Q 009143          152 DVLTHNYLVNE--LCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANN-G-------I-R  220 (542)
Q Consensus       152 ~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g-------~-~  220 (542)
                      |..|-..+++.  |...|+.|.|.+..+.+.      +...|..|.+.|.+..+.+-|.-.+-.|... |       . .
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            55666666643  667788888877766652      4577888999988888888777666555332 1       1 1


Q ss_pred             CChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 009143          221 PNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYN  300 (542)
Q Consensus       221 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  300 (542)
                      |+ .+-....-.....|.+++|+.++++...            |..|=..|...|.+++|.++-+.--..   .=-.||.
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR------------~DLlNKlyQs~g~w~eA~eiAE~~DRi---HLr~Tyy  862 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKR------------YDLLNKLYQSQGMWSEAFEIAETKDRI---HLRNTYY  862 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHH------------HHHHHHHHHhcccHHHHHHHHhhccce---ehhhhHH
Confidence            21 2222233334577888899988887754            333445677788888888876543222   1223555


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHH----------HcC---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          301 VLINGFCLNGDISSAFAYFCQML----------KRG---------FLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       301 ~li~~~~~~~~~~~A~~~~~~~~----------~~~---------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      .-...+-..++.+.|++.|++..          ...         -..|...|.-....+-..|+.|.|+.+|.....  
T Consensus       863 ~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D--  940 (1416)
T KOG3617|consen  863 NYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD--  940 (1416)
T ss_pred             HHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh--
Confidence            56666666788888888877532          111         012344455555566677888888888876543  


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCC--------CC
Q 009143          362 VAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFG--------VS  433 (542)
Q Consensus       362 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--------~~  433 (542)
                             |-.++...|-.|+.++|-++-++-.      |....--|.+.|...|++.+|...|-+.....        -.
T Consensus       941 -------~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd 1007 (1416)
T KOG3617|consen  941 -------YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKEND 1007 (1416)
T ss_pred             -------hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence                   4556777778899999888776542      55566678899999999999999988765310        00


Q ss_pred             CCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH--------Hh--
Q 009143          434 SNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAK--------IQ--  503 (542)
Q Consensus       434 p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--------m~--  503 (542)
                      .+...+|..+       .+...+.-.|-++|++.--        -+...+..|-++|.+.+|.++-=+        ++  
T Consensus      1008 ~~d~L~nlal-------~s~~~d~v~aArYyEe~g~--------~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~ 1072 (1416)
T KOG3617|consen 1008 MKDRLANLAL-------MSGGSDLVSAARYYEELGG--------YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAK 1072 (1416)
T ss_pred             HHHHHHHHHh-------hcCchhHHHHHHHHHHcch--------hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHH
Confidence            1112222222       1122334444445543321        122345567788888888765321        11  


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          504 TLGLAIDHIPFRILKKRYRRMKESDKARDIHQKW  537 (542)
Q Consensus       504 ~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  537 (542)
                      +.....|+...+...+-+....++++|..++-.+
T Consensus      1073 DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~a 1106 (1416)
T KOG3617|consen 1073 DLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLA 1106 (1416)
T ss_pred             hcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            2344557788888888888888888888776554

>PF12854 PPR_1: PPR repeat

Probab=98.71  E-value=2.2e-08  Score=58.37  Aligned_cols=33  Identities=42%  Similarity=0.872  Sum_probs=24.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009143          471 GITPDIITYTELIKGHCARGNMKEAEEVFAKIQ  503 (542)
Q Consensus       471 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  503 (542)
                      |+.||..||++||++|++.|++++|.++|++|.
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            667777777777777777777777777777763

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.69  E-value=3.6e-06  Score=76.07  Aligned_cols=59  Identities=12%  Similarity=0.058  Sum_probs=37.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          371 TIIQGLCIHGDIVKAREFLLSMLEKSVV--PEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       371 ~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      .+...|.+.|++.+|...++...+..+.  .....+..+..++.+.|++++|..+++.+..
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445566677777777777777665321  1345666777777777777777777766655

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

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

Probab=98.67  E-value=8e-06  Score=80.23  Aligned_cols=212  Identities=15%  Similarity=0.068  Sum_probs=95.2

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 009143          157 NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKK  236 (542)
Q Consensus       157 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  236 (542)
                      ..+...+.+.|-...|..+|+++         ..|..+|.+|+..|+..+|..+..+-.+  -+|+...|..+.+.....
T Consensus       402 ~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccCh
Confidence            34444455555555555555443         2233444455555555555555444443  234444554444444444


Q ss_pred             CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 009143          237 GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       237 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  316 (542)
                      .-+++|.++.+..-.          .+-..+.......++++++.+.|+.-.+.+ +.-..+|..+..+..+.++++.|.
T Consensus       471 s~yEkawElsn~~sa----------rA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  471 SLYEKAWELSNYISA----------RAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             HHHHHHHHHhhhhhH----------HHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHH
Confidence            444444444433221          111122222233445555555555444433 334444444444555555555555


Q ss_pred             HHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          317 AYFCQMLKRGFLPD-VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSML  393 (542)
Q Consensus       317 ~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  393 (542)
                      +.|......  .|| ...||.+-.+|.+.++..+|...+.+..+.+ .-+...|-..+....+.|.+++|++.+.++.
T Consensus       540 ~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  540 KAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            555544433  222 3345555555555555555555555554443 2223333333444444555555555554444

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

Probab=98.67  E-value=8.2e-06  Score=70.57  Aligned_cols=158  Identities=18%  Similarity=0.177  Sum_probs=89.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ  344 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~  344 (542)
                      ..+-..+...|+-+....+........ +.|......++....+.|++..|...+++..... ++|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            444455555555555555555543322 3344445555666666666666666666665543 55566666666666666


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 009143          345 GKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIR  424 (542)
Q Consensus       345 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  424 (542)
                      |++++|..-|.+..+.. .-+...++.+.-.|.-.|+.+.|..++......+.. |...-..+.......|++++|.++.
T Consensus       148 Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            66666666666655542 223445555555555566666666666666554433 5555555666666666666666554


Q ss_pred             HH
Q 009143          425 DL  426 (542)
Q Consensus       425 ~~  426 (542)
                      ..
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            43

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

Probab=98.67  E-value=2.3e-06  Score=83.87  Aligned_cols=217  Identities=15%  Similarity=0.051  Sum_probs=161.7

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      ..-..+...+...|-...|..+++++..         |..++..|+..|+..+|..+..+-++ .+    ++...|..++
T Consensus       399 q~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~le-k~----~d~~lyc~LG  464 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELE-KD----PDPRLYCLLG  464 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhc-CC----CcchhHHHhh
Confidence            3445566777888888888888887653         45577788888888888888888777 33    7788888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  348 (542)
                      +.....--+++|.++.+....+       .-..+.....+.++++++.+.|+.-.+.. +....+|-.+.-+..+.+++.
T Consensus       465 Dv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhH
Confidence            8777777777888777765432       12222233344788888888888777653 345677877888888888888


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 009143          349 EASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLML  428 (542)
Q Consensus       349 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (542)
                      .|.+.|..-.... +-+...||.+-.+|.+.++-.+|...+++..+.+.. +...|...+....+.|.+++|++.+.++.
T Consensus       537 ~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  537 AAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            8888888776632 334568888888999888888999888888887743 66777777888888889999988888876


Q ss_pred             h
Q 009143          429 S  429 (542)
Q Consensus       429 ~  429 (542)
                      +
T Consensus       615 ~  615 (777)
T KOG1128|consen  615 D  615 (777)
T ss_pred             H
Confidence            5

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

Probab=98.66  E-value=7.7e-05  Score=64.66  Aligned_cols=255  Identities=16%  Similarity=0.098  Sum_probs=125.1

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009143           84 QAVFNALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNEL  163 (542)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  163 (542)
                      ..+|++=..++-+++.....-...+.   +.+.++..-..+-++|...|++...+.   ++.. |-.|.......+....
T Consensus        10 d~LF~iRn~fY~Gnyq~~ine~~~~~---~~~~~~e~d~y~~raylAlg~~~~~~~---eI~~-~~~~~lqAvr~~a~~~   82 (299)
T KOG3081|consen   10 DELFNIRNYFYLGNYQQCINEAEKFS---SSKTDVELDVYMYRAYLALGQYQIVIS---EIKE-GKATPLQAVRLLAEYL   82 (299)
T ss_pred             hhHHHHHHHHHhhHHHHHHHHHHhhc---cccchhHHHHHHHHHHHHccccccccc---cccc-ccCChHHHHHHHHHHh
Confidence            45666666666666554443333332   122333333444455666666543322   1111 1123333333333333


Q ss_pred             HHcCChhHHH-HHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHH
Q 009143          164 CKIGDLEKAD-HVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDA  242 (542)
Q Consensus       164 ~~~g~~~~A~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a  242 (542)
                      ..-++.++-. ++.+.+.......+......-...|+..|++++|++......      +......=+..+.+..+++-|
T Consensus        83 ~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A  156 (299)
T KOG3081|consen   83 ELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLA  156 (299)
T ss_pred             hCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHH
Confidence            3333333322 233333333332232222333445666677777766665411      222333333445566666677


Q ss_pred             HHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Q 009143          243 VKFLGEVLADDDGKATSDVITSTILMDSYFK----NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAY  318 (542)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  318 (542)
                      .+.+++|.+.+      +..+.+.|..+|.+    .+.+.+|.-+|++|-++- +|++.+.+-...++...|++++|..+
T Consensus       157 ~~~lk~mq~id------ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~-~~T~~llnG~Av~~l~~~~~eeAe~l  229 (299)
T KOG3081|consen  157 EKELKKMQQID------EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKT-PPTPLLLNGQAVCHLQLGRYEEAESL  229 (299)
T ss_pred             HHHHHHHHccc------hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhccc-CCChHHHccHHHHHHHhcCHHHHHHH
Confidence            77776665532      33444444444443    345666666666666532 56666666666666666677777666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 009143          319 FCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA-SHFYGVLSK  359 (542)
Q Consensus       319 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A-~~~~~~~~~  359 (542)
                      ++....+. .-++.+...++..-...|...++ .+.+..+..
T Consensus       230 L~eaL~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  230 LEEALDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            66666653 33455555555555555544333 334444443

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

Probab=98.65  E-value=5.3e-06  Score=71.95  Aligned_cols=124  Identities=19%  Similarity=0.259  Sum_probs=86.7

Q ss_pred             cCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHH-HhcCC--hhHH
Q 009143          166 IGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHAL-CKKGL--LGDA  242 (542)
Q Consensus       166 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~-~~~g~--~~~a  242 (542)
                      .++.+++...++...+..| .+...|..+...|...|++++|...|++..+.. +-+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            4566677777777776665 467777777777777888888888887777653 23556666666653 55566  4777


Q ss_pred             HHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 009143          243 VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDI  296 (542)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  296 (542)
                      .+++++.++.++    .+..++..+...+.+.|++++|...|+++.+.. +|+.
T Consensus       130 ~~~l~~al~~dP----~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~  178 (198)
T PRK10370        130 REMIDKALALDA----NEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRV  178 (198)
T ss_pred             HHHHHHHHHhCC----CChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCc
Confidence            777877777776    667777777777777777777777777777664 3443

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.65  E-value=1.7e-05  Score=82.46  Aligned_cols=169  Identities=11%  Similarity=0.082  Sum_probs=95.8

Q ss_pred             CHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          187 NCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR-VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       187 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      +...+..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+.+.-+  .+                
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~----------------   89 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NL----------------   89 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hh----------------
Confidence            4566777777777777777777777765553  3433 3333333455556655444433  22                


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG  345 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  345 (542)
                        ++......++..+..+...|.+.  .-+...+..+..+|-+.|+.++|..+++++.+.. +-|+...|.+...|... 
T Consensus        90 --l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         90 --IDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-  163 (906)
T ss_pred             --hhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-
Confidence              22222233333333333444433  2344466666667777777777777777777665 44566666666666666 


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 009143          346 KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKS  396 (542)
Q Consensus       346 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  396 (542)
                      ++++|.+++......               +...+++..+.++|.++....
T Consensus       164 dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~  199 (906)
T PRK14720        164 DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN  199 (906)
T ss_pred             hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC
Confidence            677776666655443               444456666666666666543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.64  E-value=5.8e-05  Score=74.24  Aligned_cols=48  Identities=21%  Similarity=0.315  Sum_probs=27.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIR  424 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  424 (542)
                      |...+..-|-..|+...|...|-+..+         |.+-+..|...+-|++|.++-
T Consensus       884 t~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  884 THKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             HHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHH
Confidence            444455555566666666666544432         455556666666666665553

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

Probab=98.63  E-value=1.2e-05  Score=69.65  Aligned_cols=119  Identities=13%  Similarity=0.106  Sum_probs=61.5

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhCCC--H
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF-CLNGD--I  312 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~--~  312 (542)
                      .++.+++...++..+..++    .+...|..+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .
T Consensus        52 ~~~~~~~i~~l~~~L~~~P----~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~  126 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANP----QNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMT  126 (198)
T ss_pred             chhHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCc
Confidence            3444455555555555444    555555555555555555555555555555543 33445555555442 34444  3


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          313 SSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      ++|.+++++..+.+ +-+...+..+...+...|++++|...|+.+.+.
T Consensus       127 ~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        127 PQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55555555555543 224445555555555555555555555555554

>PF12854 PPR_1: PPR repeat

Probab=98.62  E-value=4.4e-08  Score=57.11  Aligned_cols=32  Identities=25%  Similarity=0.342  Sum_probs=24.2

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 009143          113 TLETDYRRHVAVIRDLCLGGKIGTALWLRRKM  144 (542)
Q Consensus       113 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  144 (542)
                      |+.||..+|++||.+||+.|++++|.++|++|
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            56777777777777777777777777777776

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

Probab=98.62  E-value=1.3e-05  Score=69.37  Aligned_cols=158  Identities=19%  Similarity=0.120  Sum_probs=97.4

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 009143          157 NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKK  236 (542)
Q Consensus       157 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  236 (542)
                      ..+-..+...|+-+....+........+ .|....+.++....+.|++.+|...+++.... -++|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~-~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYP-KDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCc-ccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHc
Confidence            4444555556666666555555443322 34455555666666667777777777666554 345666666666667777


Q ss_pred             CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 009143          237 GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       237 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  316 (542)
                      |++++|..-|.+.++..+    .+....+.+.-.+.-.|+.+.|..++......+ ..|...-..|.-.....|++++|.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~----~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~  222 (257)
T COG5010         148 GRFDEARRAYRQALELAP----NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAE  222 (257)
T ss_pred             cChhHHHHHHHHHHHhcc----CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHH
Confidence            777777777766666555    555666666666666677777766666666553 335556666666666666666666


Q ss_pred             HHHHH
Q 009143          317 AYFCQ  321 (542)
Q Consensus       317 ~~~~~  321 (542)
                      ++-..
T Consensus       223 ~i~~~  227 (257)
T COG5010         223 DIAVQ  227 (257)
T ss_pred             hhccc
Confidence            65544

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

Probab=98.61  E-value=5.3e-05  Score=65.65  Aligned_cols=139  Identities=17%  Similarity=0.093  Sum_probs=71.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----
Q 009143          268 MDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK----  343 (542)
Q Consensus       268 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----  343 (542)
                      ...|+..|++++|++......      +......=...+.+..+++-|.+.+++|.+-   .+..|.+.|..++.+    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATG  185 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhcc
Confidence            344555555555555554411      1222222223344555566666666666553   244455555555443    


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 009143          344 QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDL  417 (542)
Q Consensus       344 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  417 (542)
                      .++..+|.-+|++|.+. .+|+..+.+-...++...|++++|..+++..+.+... ++.+...++..-...|..
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKD  257 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCC
Confidence            23456666666666543 3456666666666666666666666666666665554 455544444444444433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.56  E-value=4.5e-05  Score=78.55  Aligned_cols=201  Identities=10%  Similarity=0.005  Sum_probs=151.2

Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ  279 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  279 (542)
                      +.....+++.-+....+. .+.+...+..|.....+.|.+++|..+++.+.+..+    .+......++..+.+.+++++
T Consensus        64 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~P----d~~~a~~~~a~~L~~~~~~ee  138 (694)
T PRK15179         64 AVHKPAAALPELLDYVRR-YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFP----DSSEAFILMLRGVKRQQGIEA  138 (694)
T ss_pred             hhcchHhhHHHHHHHHHh-ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC----CcHHHHHHHHHHHHHhccHHH
Confidence            333334443333333332 455788999999999999999999999999999887    888999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          280 ALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       280 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      |+...++..... +-+......+..++.+.|++++|..+|+++...+ +-+..++..+..++-..|+.++|...|+...+
T Consensus       139 A~~~~~~~l~~~-p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        139 GRAEIELYFSGG-SSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHhhcC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999886 6677888889999999999999999999999843 34578899999999999999999999999887


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhc
Q 009143          360 TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKS----VVPEPHIWNVIIDGYGRC  414 (542)
Q Consensus       360 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~li~~~~~~  414 (542)
                      .. .+....|+..+      ++...-...++++.-.+    .........-.+.-|.+.
T Consensus       217 ~~-~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (694)
T PRK15179        217 AI-GDGARKLTRRL------VDLNADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGRR  268 (694)
T ss_pred             hh-CcchHHHHHHH------HHHHHHHHHHHHcCcccccCCCceeeeeHHHHHHHHhhc
Confidence            52 34555555554      34445555666654332    222334455555555543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.53  E-value=5.6e-05  Score=77.86  Aligned_cols=214  Identities=11%  Similarity=0.009  Sum_probs=157.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHH-HHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhh--CCCCCCHHhHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTAL-WLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSE--MRPSPNCATYNA  193 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~~  193 (542)
                      ++.....+=.++..-|..++|- +++.++               =+...+.|.+..+.+.+-++..  .....+...+-.
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (694)
T PRK15179         27 GPTILDLLEAALAEPGESEEAGRELLQQA---------------RQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVL   91 (694)
T ss_pred             CcHHHhHHHHHhcCcccchhHHHHHHHHH---------------HHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHH
Confidence            4444444444555667666663 233322               1223334444444333333321  123356889999


Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHH
Q 009143          194 FITGYCRVNELDKALHLFSTMANNGIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYF  272 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  272 (542)
                      |.....+.|+.++|..+++...+.  .|+ ......++..+.+.+++++|....++.+...+    .+......+..++.
T Consensus        92 La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p----~~~~~~~~~a~~l~  165 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS----SSAREILLEAKSWD  165 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC----CCHHHHHHHHHHHH
Confidence            999999999999999999999885  454 56777889999999999999999999999887    88999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 009143          273 KNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASH  352 (542)
Q Consensus       273 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  352 (542)
                      +.|++++|..+|+++...+ +-+..++..+...+...|+.++|...|++..+.. .|....|+..+.      ++..-..
T Consensus       166 ~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~------~~~~~~~  237 (694)
T PRK15179        166 EIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV------DLNADLA  237 (694)
T ss_pred             HhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH------HHHHHHH
Confidence            9999999999999999854 5568899999999999999999999999998863 556666665543      3333444


Q ss_pred             HHHHHHH
Q 009143          353 FYGVLSK  359 (542)
Q Consensus       353 ~~~~~~~  359 (542)
                      +++.+.-
T Consensus       238 ~~~~~~~  244 (694)
T PRK15179        238 ALRRLGV  244 (694)
T ss_pred             HHHHcCc
Confidence            5555443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.50  E-value=1.6e-05  Score=65.14  Aligned_cols=92  Identities=11%  Similarity=-0.006  Sum_probs=46.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL  308 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  308 (542)
                      +...+...|++++|...|+.++...+    .+..+|..+...+.+.|++++|...|+.....+ +.+...+..+..++..
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~P----~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQP----WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCC----CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            34444455555555555555554444    444555555555555555555555555555443 3444445555555555


Q ss_pred             CCCHHHHHHHHHHHHHc
Q 009143          309 NGDISSAFAYFCQMLKR  325 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~  325 (542)
                      .|++++|+..|+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            55555555555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.48  E-value=1.5e-05  Score=65.32  Aligned_cols=93  Identities=12%  Similarity=-0.006  Sum_probs=40.1

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 009143          159 LVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGL  238 (542)
Q Consensus       159 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  238 (542)
                      +...+...|++++|...|+......| .+...|..+..++.+.|++++|...|++..... +.+..++..+..++...|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            33344444444444444444444333 234444444444444444444444444444331 2233444444444444444


Q ss_pred             hhHHHHHHHHHHhCC
Q 009143          239 LGDAVKFLGEVLADD  253 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~  253 (542)
                      .++|...++..+...
T Consensus       108 ~~eAi~~~~~Al~~~  122 (144)
T PRK15359        108 PGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            444444444444433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.48  E-value=0.00017  Score=62.08  Aligned_cols=188  Identities=15%  Similarity=0.145  Sum_probs=137.2

Q ss_pred             cCChHHHHHHHHHHHhC---C-CCCChhh-HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChh
Q 009143          131 GGKIGTALWLRRKMIQK---G-TVPDVLT-HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELD  205 (542)
Q Consensus       131 ~g~~~~A~~~~~~m~~~---g-~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  205 (542)
                      ..+.++.++++..++..   | ..|+.++ |..++-+....|+.+.|...++.+...-|. +...-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~-S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPG-SKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHhhchh
Confidence            35566677777666542   3 4455543 455666677889999999999998776543 2222222222344578999


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWN  285 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  285 (542)
                      +|.++++.+.+.. +.|.+++-.-+.+.-..|+.-+|++-+.+.++.-.    .|..+|.-+...|...|++++|.-.++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~----~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFM----NDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhc----CcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            9999999998875 55677787777777788888899999998888665    889999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHHc
Q 009143          286 DMFQKNIQTDIVAYNVLINGFCLNG---DISSAFAYFCQMLKR  325 (542)
Q Consensus       286 ~~~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~~~~~  325 (542)
                      ++.-.. |.++..+..+...+.-.|   +.+.+.++|.+..+.
T Consensus       179 E~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  179 ELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            988765 566666666766655544   556678888887765

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

Probab=98.41  E-value=0.00017  Score=68.07  Aligned_cols=118  Identities=17%  Similarity=0.206  Sum_probs=60.9

Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      ...|.+++|+..++.+... .+-|+.........+.+.++.++|.+.+++++...+    ........+.+++.+.|++.
T Consensus       317 ~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P----~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALDP----NSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CccHHHHHHHHHHHhcCChH
Confidence            3455555555555555443 222333333444555555555555555555555444    33445555555555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQM  322 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  322 (542)
                      +|.+.++...... +.|+..|..|..+|...|+..++..-..+.
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            5555555555443 445555555555555555555555444443

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

Probab=98.39  E-value=0.00028  Score=66.69  Aligned_cols=240  Identities=13%  Similarity=0.073  Sum_probs=166.3

Q ss_pred             HHHHHhcCCh-HHHHHHHHHHHh---CCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCC--CCCCHHhHHHHHHHH
Q 009143          125 IRDLCLGGKI-GTALWLRRKMIQ---KGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR--PSPNCATYNAFITGY  198 (542)
Q Consensus       125 i~~~~~~g~~-~~A~~~~~~m~~---~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~  198 (542)
                      |..+.+.|.- ....++|+++..   .+-.|+....+    .=.-..+..++...-+.+...+  ..|+...+...+.+.
T Consensus       209 i~~L~raGydp~gM~~ff~rl~~~~~~~~~~p~yl~T----HPlp~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~  284 (484)
T COG4783         209 ITTLVRAGYDPQGMPEFFERLADQLRYGGQPPEYLLT----HPLPEERIADLRNRAEQSPPYNKLDSPDFQLARARIRAK  284 (484)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHHhcCCCCChHHhc----CCCchhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHH
Confidence            4555677754 444588888873   34444433211    1111234444444444443211  235555666666655


Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      .....-..+..++.+-.+.  .-...-|. ..-.+...|++++|+..++.++...+    .|+..+....+.+.+.++..
T Consensus       285 ~~~~~~~~~~~~~~~~~~~--~~~aa~YG-~A~~~~~~~~~d~A~~~l~~L~~~~P----~N~~~~~~~~~i~~~~nk~~  357 (484)
T COG4783         285 YEALPNQQAADLLAKRSKR--GGLAAQYG-RALQTYLAGQYDEALKLLQPLIAAQP----DNPYYLELAGDILLEANKAK  357 (484)
T ss_pred             hccccccchHHHHHHHhCc--cchHHHHH-HHHHHHHhcccchHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCChH
Confidence            5444444444444333331  11222333 33446688999999999999999777    89999999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      +|.+.++.+.... +......-.+..++.+.|++.+|+.+++...... +-|+..|..|..+|...|+..++.....+..
T Consensus       358 ~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         358 EAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            9999999999884 2336677788899999999999999999988774 6688999999999999999999998887776


Q ss_pred             HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          359 KTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       359 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      ...                  |++++|...+....+.
T Consensus       436 ~~~------------------G~~~~A~~~l~~A~~~  454 (484)
T COG4783         436 ALA------------------GRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HhC------------------CCHHHHHHHHHHHHHh
Confidence            542                  7777888777777664

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.37  E-value=2.6e-05  Score=63.50  Aligned_cols=96  Identities=14%  Similarity=0.087  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCL  341 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~  341 (542)
                      .....+...+...|++++|.+.|+.+...+ +.+...+..+...+...|++++|...+++..+.+ +.+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            333344444444444444444444444332 2334444444444444444444444444443332 22333333344444


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 009143          342 CKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       342 ~~~g~~~~A~~~~~~~~~  359 (542)
                      ...|++++|...|+...+
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        96 LALGEPESALKALDLAIE  113 (135)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            444444444444444443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.37  E-value=0.00047  Score=59.50  Aligned_cols=190  Identities=15%  Similarity=0.169  Sum_probs=122.2

Q ss_pred             cCChhhHHHHHHHHHHC---C-CCCChH-HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          201 VNELDKALHLFSTMANN---G-IRPNRV-THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       201 ~g~~~~A~~~~~~m~~~---g-~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..+.++.++++..+...   | ..++.. .|..++-+....|+.+.|...++++...-+    .+..+--.-...+-..|
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp----~S~RV~~lkam~lEa~~  100 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFP----GSKRVGKLKAMLLEATG  100 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCC----CChhHHHHHHHHHHHhh
Confidence            34566666666666432   3 444543 344555666677888888888888777654    33333333333445567


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          276 DKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYG  355 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  355 (542)
                      ++++|.++++.+++.+ +.|..++-.=+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++
T Consensus       101 ~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  101 NYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             chhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            7888888888887776 666667766666666677777777777777766 46677888888888888888888888887


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCC
Q 009143          356 VLSKTGVAPDQISYKTIIQGLCIHG---DIVKAREFLLSMLEKSV  397 (542)
Q Consensus       356 ~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~~  397 (542)
                      ++.-.. |.++..+..+.+.+...|   +.+-|.+.+.+.++...
T Consensus       179 E~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  179 ELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            777642 334445555555544333   45567777777777543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.35  E-value=3.2e-05  Score=62.91  Aligned_cols=95  Identities=15%  Similarity=0.027  Sum_probs=49.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLING  305 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  305 (542)
                      ...+...+...|++++|.+.++.+...++    .+...+..+...+.+.|++++|...++...+.+ +.+...+..+...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDP----YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            33444445555555555555555555443    444555555555555555555555555554443 3344555555555


Q ss_pred             HHhCCCHHHHHHHHHHHHHc
Q 009143          306 FCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       306 ~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +...|++++|...|+...+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            55555555555555555543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.27  E-value=4.7e-05  Score=62.64  Aligned_cols=130  Identities=22%  Similarity=0.236  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH--HHHH
Q 009143          403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI--ITYT  480 (542)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~  480 (542)
                      .|..++..+ ..++...+...++.+.+....-.......+..+   ..+...|++++|...|+........|+.  ....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA---~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLA---KAAYEQGDYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHH---HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            344455544 367777777777777774211111122222222   2256678888888888888876423322  3444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHh
Q 009143          481 ELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       481 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      .|...+...|++++|...++.....  ......+....+.|.+.|++++|...|++++
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            5778888899999999988764433  2355667788888999999999999988764

>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=98.21  E-value=0.00013  Score=69.59  Aligned_cols=124  Identities=13%  Similarity=0.189  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHH
Q 009143          191 YNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDS  270 (542)
Q Consensus       191 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~  270 (542)
                      ...|+..+...++++.|+++++++.+..  |+  ....+++.+...++..+|.+++.+.+...+    .+......-.+.
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p----~d~~LL~~Qa~f  243 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENP----QDSELLNLQAEF  243 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC----CCHHHHHHHHHH
Confidence            3445555666677777777777777653  43  334466666677777777777777776555    566666666667


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          271 YFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       271 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      +.+.++++.|+++.+++.+.. |.+..+|..|..+|...|+++.|+-.+..+.
T Consensus       244 Ll~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777777777664 4445577777777777777777777776554

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=98.14  E-value=0.014  Score=59.62  Aligned_cols=228  Identities=18%  Similarity=0.194  Sum_probs=151.8

Q ss_pred             hHHHHHHHH-HHhhHHHHHHHHhhCCCCCCCCCChhhHHHHHHH--HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009143           85 AVFNALDLI-LKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRD--LCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVN  161 (542)
Q Consensus        85 ~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  161 (542)
                      +++..++.- .+..+.....+.+..       ||.. |..++.+  +.+.|+.++|..+++.....+.. |..|...+-.
T Consensus        15 pi~d~ld~~qfkkal~~~~kllkk~-------Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~   85 (932)
T KOG2053|consen   15 PIYDLLDSSQFKKALAKLGKLLKKH-------PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQN   85 (932)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHC-------CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHH
Confidence            444444332 244455555555554       3332 3334444  46889999999888887766544 7888999999


Q ss_pred             HHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC----
Q 009143          162 ELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG----  237 (542)
Q Consensus       162 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g----  237 (542)
                      .|...|+.++|..+|++.....  |+......+..+|.+.+.+.+-.+.--+|.+. ++-+...+=++++...+.-    
T Consensus        86 ~y~d~~~~d~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~  162 (932)
T KOG2053|consen   86 VYRDLGKLDEAVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSEN  162 (932)
T ss_pred             HHHHHhhhhHHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCc
Confidence            9999999999999999998765  45777777888899988877655555555442 3345555556666555432    


Q ss_pred             ------ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHH-HHHHHCCCCCCHHHHHHHHHHHHhCC
Q 009143          238 ------LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALW-NDMFQKNIQTDIVAYNVLINGFCLNG  310 (542)
Q Consensus       238 ------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~-~~~~~~~~~~~~~~~~~li~~~~~~~  310 (542)
                            -..-|.+.++.+++.+. .. ....-.......+-..|++++|.+++ ....+.-...+...-+.-+..+...+
T Consensus       163 ~~~~~i~l~LA~~m~~~~l~~~g-k~-~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~  240 (932)
T KOG2053|consen  163 ELLDPILLALAEKMVQKLLEKKG-KI-ESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLN  240 (932)
T ss_pred             ccccchhHHHHHHHHHHHhccCC-cc-chHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhc
Confidence                  12346777777777662 11 22222333344556678899999998 44444433445555566778888899


Q ss_pred             CHHHHHHHHHHHHHcC
Q 009143          311 DISSAFAYFCQMLKRG  326 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~~  326 (542)
                      ++.+..++-.++...|
T Consensus       241 ~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  241 RWQELFELSSRLLEKG  256 (932)
T ss_pred             ChHHHHHHHHHHHHhC
Confidence            9999999999999885

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.12  E-value=0.0098  Score=57.26  Aligned_cols=61  Identities=8%  Similarity=0.013  Sum_probs=33.2

Q ss_pred             hHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009143           97 NLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVN  161 (542)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  161 (542)
                      ..+.++...+.+..  .++..+..|..-|..-.+.++++....+|.+.+..-  .+...|..-++
T Consensus        34 ~~~~~R~~YEq~~~--~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lYl~   94 (656)
T KOG1914|consen   34 PIDKVRETYEQLVN--VFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLYLS   94 (656)
T ss_pred             CHHHHHHHHHHHhc--cCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHHHH
Confidence            44555555554431  122344566777777777777777777777665542  23444544444

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.11  E-value=0.00018  Score=59.12  Aligned_cols=21  Identities=19%  Similarity=0.257  Sum_probs=8.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 009143          269 DSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      ..+...|++++|...|+....
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~   76 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALA   76 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHh
Confidence            333444444444444444433

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.07  E-value=6.1e-06  Score=48.84  Aligned_cols=33  Identities=42%  Similarity=0.919  Sum_probs=25.3

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANNGIRPN  222 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  222 (542)
                      +||.+|.+|++.|++++|.++|++|.+.|++||
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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.06  E-value=7.7e-06  Score=48.39  Aligned_cols=33  Identities=33%  Similarity=0.624  Sum_probs=26.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD  152 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  152 (542)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            677888888888888888888888887777776

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.

>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=98.01  E-value=0.00022  Score=67.97  Aligned_cols=123  Identities=19%  Similarity=0.142  Sum_probs=90.3

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 009143          158 YLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG  237 (542)
Q Consensus       158 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  237 (542)
                      .|+..+...++++.|.++|+++.+..  |++  ...++..+...++-.+|.+++.+..+. .+.+...+......+.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            34455556678888888888887654  333  334677777777778888888887764 2335666666677778888


Q ss_pred             ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          238 LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      +.+.|+++.+++....|    .+-.+|..|..+|.+.|+++.|+..++.+.-
T Consensus       249 ~~~lAL~iAk~av~lsP----~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  249 KYELALEIAKKAVELSP----SEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CHHHHHHHHHHHHHhCc----hhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            88888888888888776    7777888888888888888888888887763

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.00  E-value=0.00065  Score=62.76  Aligned_cols=296  Identities=15%  Similarity=0.089  Sum_probs=149.6

Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh
Q 009143          194 FITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK  273 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  273 (542)
                      ....+.+..++.+|+..+....+.. +-+..-|..-+..+...|+++++.--.+.-++..+    .......-..+++..
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd----~~~k~~~r~~~c~~a  129 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKD----GFSKGQLREGQCHLA  129 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecCC----Cccccccchhhhhhh
Confidence            3344445555555555555555543 22333444444445555555555544444444333    222233333334444


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCHHHHHHHH-HHHHhcCCHHHHH
Q 009143          274 NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF-LPDVITYNTLL-NCLCKQGKLDEAS  351 (542)
Q Consensus       274 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~p~~~~~~~li-~~~~~~g~~~~A~  351 (542)
                      .++..+|.+.++         +...|           ....++..++....... +|.-.++..+- .++.-.|+.++|.
T Consensus       130 ~~~~i~A~~~~~---------~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~  189 (486)
T KOG0550|consen  130 LSDLIEAEEKLK---------SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQ  189 (486)
T ss_pred             hHHHHHHHHHhh---------hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHH
Confidence            444444443333         00000           11122222332222221 23334444433 3556678999998


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHH--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHH---HHHH----------HHhcCC
Q 009143          352 HFYGVLSKTGVAPDQISYKTIIQGL--CIHGDIVKAREFLLSMLEKSVVPEPHIWNV---IIDG----------YGRCGD  416 (542)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~---li~~----------~~~~g~  416 (542)
                      +.-..+.+..   ....+...+++.  .-.++.+.|...|.+.+..++  +...-..   ....          ..+.|+
T Consensus       190 ~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldp--dh~~sk~~~~~~k~le~~k~~gN~~fk~G~  264 (486)
T KOG0550|consen  190 SEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDP--DHQKSKSASMMPKKLEVKKERGNDAFKNGN  264 (486)
T ss_pred             HHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhccCh--hhhhHHhHhhhHHHHHHHHhhhhhHhhccc
Confidence            8887777753   223444445443  346788999999999887653  3322211   1222          235678


Q ss_pred             hHHHHHHHHHHHhCC---CCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCH
Q 009143          417 LSNAFSIRDLMLSFG---VSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGHCARGNM  492 (542)
Q Consensus       417 ~~~A~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~  492 (542)
                      +..|.+.|.+.+...   ..|+...|...-.+     ..+.|+.++|+.-.++..+.  .|.. ..|..-..++...++|
T Consensus       265 y~~A~E~Yteal~idP~n~~~naklY~nra~v-----~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~  337 (486)
T KOG0550|consen  265 YRKAYECYTEALNIDPSNKKTNAKLYGNRALV-----NIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKW  337 (486)
T ss_pred             hhHHHHHHHHhhcCCccccchhHHHHHHhHhh-----hcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHH
Confidence            888888888877631   22333333333333     56778888888887777753  2211 2333333455567778


Q ss_pred             HHHHHHHHHHhHcCCC-CChhHHHHHHHHHHhcCC
Q 009143          493 KEAEEVFAKIQTLGLA-IDHIPFRILKKRYRRMKE  526 (542)
Q Consensus       493 ~~A~~~~~~m~~~g~~-~~~~~~~~l~~~~~~~g~  526 (542)
                      ++|.+-+++..+.... -...++.....++.++.+
T Consensus       338 e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkkSkR  372 (486)
T KOG0550|consen  338 EEAVEDYEKAMQLEKDCEIRRTLREAQLALKKSKR  372 (486)
T ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHhhh
Confidence            8888888777664222 123444444444544443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.98  E-value=1.2e-05  Score=47.23  Aligned_cols=33  Identities=36%  Similarity=0.739  Sum_probs=24.6

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCC
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRP  221 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  221 (542)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.97  E-value=1.4e-05  Score=46.94  Aligned_cols=33  Identities=27%  Similarity=0.338  Sum_probs=25.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 009143          119 RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVP  151 (542)
Q Consensus       119 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  151 (542)
                      .+|+.++.++++.|+++.|.++|+.|.+.|++|
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            467778888888888888888888887777766

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.91  E-value=0.00055  Score=54.09  Aligned_cols=22  Identities=32%  Similarity=0.304  Sum_probs=8.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHH
Q 009143          229 LVHALCKKGLLGDAVKFLGEVL  250 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~  250 (542)
                      +..++.+.|+++.|.+.++.+.
T Consensus        45 l~~~~~~~~~~~~A~~~~~~~~   66 (119)
T TIGR02795        45 LGEAYYAQGKYADAAKAFLAVV   66 (119)
T ss_pred             HHHHHHhhccHHHHHHHHHHHH
Confidence            3333333334444444433333

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.90  E-value=0.0006  Score=53.84  Aligned_cols=99  Identities=21%  Similarity=0.113  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI--QTDIVAYNVLI  303 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li  303 (542)
                      +..++..+.+.|++++|.+.+.+++...+ ..+.....+..+...+.+.|+++.|...|+.+.....  +....++..+.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYP-KSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            34445555555666666666666555433 1111233444555556666666666666665554321  11133455555


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHc
Q 009143          304 NGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .++.+.|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555556666666666555554

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.85  E-value=0.00035  Score=52.27  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=7.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHH
Q 009143          267 LMDSYFKNGDKFQALALWNDM  287 (542)
Q Consensus       267 l~~~~~~~g~~~~a~~~~~~~  287 (542)
                      +...+...|++++|.+.++..
T Consensus        40 ~~~~~~~~~~~~~a~~~~~~~   60 (100)
T cd00189          40 LAAAYYKLGKYEEALEDYEKA   60 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.85  E-value=0.00035  Score=66.97  Aligned_cols=124  Identities=12%  Similarity=0.142  Sum_probs=93.4

Q ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 009143          291 NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR--GFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQIS  368 (542)
Q Consensus       291 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  368 (542)
                      +.+.+......+++.+....+.+.+..++.+....  ....-..|..++++.|...|..+++..++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44667777788888887778888888888877765  2222344556888888888888888888888788888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009143          369 YKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC  414 (542)
Q Consensus       369 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  414 (542)
                      ++.|++.+.+.|++..|.++...|...+...++.|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887776666667766666665554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.83  E-value=0.00041  Score=66.53  Aligned_cols=125  Identities=18%  Similarity=0.155  Sum_probs=83.6

Q ss_pred             CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 009143          219 IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVA  298 (542)
Q Consensus       219 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  298 (542)
                      .+.+......+++.+....+++.+..++-+...... ....-..+..++++.|.+.|..+.++.+++.=...|+-||..+
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~-~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPN-CSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcc-cccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            344556666666666666667777777776665432 1112233445777777777777777777777777777778778


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009143          299 YNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ  344 (542)
Q Consensus       299 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~  344 (542)
                      ++.|++.+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888887777788777777777777666555666666555555554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.81  E-value=0.0057  Score=54.96  Aligned_cols=78  Identities=15%  Similarity=0.161  Sum_probs=47.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH---HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTH---NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      .+-.....+.+.|++++|+..|+.+...-.. +....   -.++.++.+.+++++|...+++..+..|......|...+.
T Consensus        34 ~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~  112 (243)
T PRK10866         34 EIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMR  112 (243)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHH
Confidence            3334455556778888888888888775222 12222   3456667778888888888888777665433344444444


Q ss_pred             HH
Q 009143          197 GY  198 (542)
Q Consensus       197 ~~  198 (542)
                      +.
T Consensus       113 g~  114 (243)
T PRK10866        113 GL  114 (243)
T ss_pred             HH
Confidence            43

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.013  Score=54.51  Aligned_cols=227  Identities=15%  Similarity=0.057  Sum_probs=114.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCCh
Q 009143          125 IRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNEL  204 (542)
Q Consensus       125 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  204 (542)
                      ...+.+..++..|+..+...++... .+...|..-...+...|++++|.--.+.-.+..+. ....+.-.-+++...++.
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~~p-d~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~~  133 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDMCP-DNASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSDL  133 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHhCc-cchhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHHH
Confidence            3456677788888888888888743 34556666666677777777775544444332211 111222222333333333


Q ss_pred             hhHHHHHH---------------HHHHCCC-CCChHHHHHHH-HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHH
Q 009143          205 DKALHLFS---------------TMANNGI-RPNRVTHNILV-HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTIL  267 (542)
Q Consensus       205 ~~A~~~~~---------------~m~~~g~-~p~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  267 (542)
                      .+|.+.++               ....... +|.-.++..+- ..+.-.|+.++|.++-..+++.+.    .+......-
T Consensus       134 i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~----~n~~al~vr  209 (486)
T KOG0550|consen  134 IEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA----TNAEALYVR  209 (486)
T ss_pred             HHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc----chhHHHHhc
Confidence            33333332               1111111 12223333222 334456777777777777776655    444444444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-------------HHHHHHHhCCCHHHHHHHHHHHHHcC---CCCCH
Q 009143          268 MDSYFKNGDKFQALALWNDMFQKNIQTDIVAYN-------------VLINGFCLNGDISSAFAYFCQMLKRG---FLPDV  331 (542)
Q Consensus       268 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-------------~li~~~~~~~~~~~A~~~~~~~~~~~---~~p~~  331 (542)
                      ..++.-.++.+.+...|++.+..+  |+...-.             .-.+-..+.|++..|.+.|.+.+...   ..|+.
T Consensus       210 g~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~na  287 (486)
T KOG0550|consen  210 GLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNA  287 (486)
T ss_pred             ccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhH
Confidence            445555667777777777776553  3322211             11122344555555555555554331   22333


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          332 ITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       332 ~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      ..|.....+..+.|+.++|+.-.+...+
T Consensus       288 klY~nra~v~~rLgrl~eaisdc~~Al~  315 (486)
T KOG0550|consen  288 KLYGNRALVNIRLGRLREAISDCNEALK  315 (486)
T ss_pred             HHHHHhHhhhcccCCchhhhhhhhhhhh
Confidence            4444444455555555555555555444

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.78  E-value=0.00088  Score=64.16  Aligned_cols=88  Identities=14%  Similarity=-0.036  Sum_probs=43.4

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  312 (542)
                      +...|++++|++.+++++...+    .+...|..+..+|.+.|++++|+..++++++.. +.+...|..+..+|...|++
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~P----~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLDP----NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            3344555555555555554444    444445555555555555555555555554443 23444444555555555555


Q ss_pred             HHHHHHHHHHHHc
Q 009143          313 SSAFAYFCQMLKR  325 (542)
Q Consensus       313 ~~A~~~~~~~~~~  325 (542)
                      ++|+..|++..+.
T Consensus        87 ~eA~~~~~~al~l   99 (356)
T PLN03088         87 QTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555555443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.77  E-value=4.5e-05  Score=55.98  Aligned_cols=82  Identities=18%  Similarity=0.235  Sum_probs=60.7

Q ss_pred             cCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHH
Q 009143          454 LGHIHLALQLYDEMLRRGI-TPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARD  532 (542)
Q Consensus       454 ~g~~~~A~~~~~~~~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~  532 (542)
                      .|+++.|+.+++++.+... .|+...+..+..+|.+.|++++|..++++ .+.+.. +......+..+|...|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            4789999999999998532 22455666689999999999999999988 333222 33444466888999999999999


Q ss_pred             HHHHH
Q 009143          533 IHQKW  537 (542)
Q Consensus       533 ~~~~~  537 (542)
                      .++++
T Consensus        80 ~l~~~   84 (84)
T PF12895_consen   80 ALEKA   84 (84)
T ss_dssp             HHHHH
T ss_pred             HHhcC
Confidence            99874

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.74  E-value=0.00065  Score=50.75  Aligned_cols=92  Identities=22%  Similarity=0.264  Sum_probs=41.1

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 009143          157 NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKK  236 (542)
Q Consensus       157 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  236 (542)
                      ..+...+...|++++|.+.++++.+..+. +...+..+...+...+++++|.+.++...... +.+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            33444444555555555555555443321 22344444444444455555555554444432 11223344444444444


Q ss_pred             CChhHHHHHHHHHH
Q 009143          237 GLLGDAVKFLGEVL  250 (542)
Q Consensus       237 g~~~~a~~~~~~~~  250 (542)
                      |+.+.|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            44444444444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.73  E-value=0.0087  Score=55.48  Aligned_cols=145  Identities=18%  Similarity=0.239  Sum_probs=74.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHc----CCCCC--HHHHHHHHHH
Q 009143          268 MDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN-GDISSAFAYFCQMLKR----GFLPD--VITYNTLLNC  340 (542)
Q Consensus       268 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~A~~~~~~~~~~----~~~p~--~~~~~~li~~  340 (542)
                      +..|...|++..|-+.+..+-               ..|-.. |++++|++.|++..+.    | .+.  ...+..+...
T Consensus       101 ~~~y~~~G~~~~aA~~~~~lA---------------~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l  164 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKELA---------------EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADL  164 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHH---------------HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHH
Confidence            344555555555555444433               345455 6777777777765532    2 111  2345566667


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCC-----hh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--C--CCHHHHHHHHHH
Q 009143          341 LCKQGKLDEASHFYGVLSKTGVAPD-----QI-SYKTIIQGLCIHGDIVKAREFLLSMLEKSV--V--PEPHIWNVIIDG  410 (542)
Q Consensus       341 ~~~~g~~~~A~~~~~~~~~~~~~~~-----~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~--~~~~~~~~li~~  410 (542)
                      +.+.|++++|.++|+++.......+     .. .+-..+-.+...||...|.+.+++.....+  .  ........|+.+
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            7777888888888877765432211     11 112222344456777788888877765532  1  112345556666


Q ss_pred             HHh--cCChHHHHHHHHHHH
Q 009143          411 YGR--CGDLSNAFSIRDLML  428 (542)
Q Consensus       411 ~~~--~g~~~~A~~~~~~m~  428 (542)
                      +-.  ...++.++.-|+.+.
T Consensus       245 ~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  245 YEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHTT-CCCHHHHCHHHTTSS
T ss_pred             HHhCCHHHHHHHHHHHcccC
Confidence            543  234555555555444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.70  E-value=0.0015  Score=52.87  Aligned_cols=90  Identities=9%  Similarity=-0.057  Sum_probs=45.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                      ...+...|++++|.++|+-+...++    .+...|..|.-++-..|++++|+..|......+ +.|+..+-.+..++...
T Consensus        42 A~~ly~~G~l~~A~~~f~~L~~~Dp----~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         42 AMQLMEVKEFAGAARLFQLLTIYDA----WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCc----ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            3334455555555555555555444    444555555555555555555555555555444 34444555555555555


Q ss_pred             CCHHHHHHHHHHHHH
Q 009143          310 GDISSAFAYFCQMLK  324 (542)
Q Consensus       310 ~~~~~A~~~~~~~~~  324 (542)
                      |+.+.|.+-|+....
T Consensus       117 G~~~~A~~aF~~Ai~  131 (157)
T PRK15363        117 DNVCYAIKALKAVVR  131 (157)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.68  E-value=0.0013  Score=55.79  Aligned_cols=62  Identities=11%  Similarity=-0.017  Sum_probs=25.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          227 NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       227 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      ..+...+...|++++|...+++.+...+ .......++..+...+...|++++|...++....
T Consensus        39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~-~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         39 YRDGMSAQSEGEYAEALQNYYEAMRLEI-DPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhccc-cchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3333444444444444444444443322 1001123444444444444444444444444443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.68  E-value=6.2e-05  Score=42.95  Aligned_cols=29  Identities=24%  Similarity=0.355  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKG  148 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g  148 (542)
                      +|++++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777777665

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.67  E-value=0.00071  Score=62.40  Aligned_cols=130  Identities=14%  Similarity=0.098  Sum_probs=68.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHh
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDG-YGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAE  446 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  446 (542)
                      +|..++...-+.+..+.|..+|.+..+.+. .+...|-..... |...++.+.|.++|+...+. +..+...|...+.- 
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~-   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF-   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH-
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH-
Confidence            456666666666666777777777664322 133344433333 22245555577777666653 22333444444433 


Q ss_pred             hcccccccCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          447 TRGASCNLGHIHLALQLYDEMLRRGITPDI---ITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       447 ~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                          +.+.|+.+.|..+|++.... +.++.   ..|...++-=.+.|+.+.+..+.+++.+.
T Consensus        80 ----l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 ----LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             ----HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             ----HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                44556666666666666654 22221   35666666666666666666666666664

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.67  E-value=0.0068  Score=52.79  Aligned_cols=131  Identities=12%  Similarity=0.128  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHH-----H
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNIL-----V  230 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-----~  230 (542)
                      .+.++..+.-.|.+.-...++.++.+..++.+......|++.-.+.|+.+.|...|++..+..-+.|..+++.+     .
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34555666666777777888888887776677777778888888888888888888877654333333333333     3


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          231 HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       231 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      ..|.-++++..|...+.+++..++    .++...|.-.-+..-.|+..+|++..+.|.+.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~----~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDP----RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccCC----CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            344456677777777777777766    66666666666666677777777777777765

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.66  E-value=5.9e-05  Score=43.04  Aligned_cols=29  Identities=45%  Similarity=0.798  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhHcC
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g  506 (542)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777777665

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.

>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=97.65  E-value=0.00029  Score=49.32  Aligned_cols=66  Identities=20%  Similarity=0.184  Sum_probs=58.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcC-ChhHHHHHHHHHhhcC
Q 009143          475 DIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMK-ESDKARDIHQKWLLRN  541 (542)
Q Consensus       475 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~l~~~  541 (542)
                      ++..|..+...+...|++++|+..|++..+... .+...|..+..++...| ++++|.+.++++++.|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            567889999999999999999999999999753 37788899999999999 7999999999998876

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.64  E-value=0.014  Score=52.37  Aligned_cols=58  Identities=10%  Similarity=0.085  Sum_probs=39.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 009143          371 TIIQGLCIHGDIVKAREFLLSMLEKSV--VPEPHIWNVIIDGYGRCGDLSNAFSIRDLML  428 (542)
Q Consensus       371 ~li~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (542)
                      .+...|.+.|.+..|..-++.+++.-+  +........++.+|...|..++|..+...+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            455567778888888888888876522  2234556677778888888888877665543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.62  E-value=0.0013  Score=49.38  Aligned_cols=78  Identities=19%  Similarity=0.323  Sum_probs=46.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhCC--------CHHHHHHHHHHHHHcCCCCCHHHHH
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQKNI-QTDIVAYNVLINGFCLNG--------DISSAFAYFCQMLKRGFLPDVITYN  335 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~--------~~~~A~~~~~~~~~~~~~p~~~~~~  335 (542)
                      ...+..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..||+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3445555555666666667777766666 666777776666655542        2234555566666666666666666


Q ss_pred             HHHHHHH
Q 009143          336 TLLNCLC  342 (542)
Q Consensus       336 ~li~~~~  342 (542)
                      .++..+.
T Consensus       109 ivl~~Ll  115 (120)
T PF08579_consen  109 IVLGSLL  115 (120)
T ss_pred             HHHHHHH
Confidence            6665544

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 [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.60  E-value=0.00093  Score=50.06  Aligned_cols=73  Identities=14%  Similarity=0.186  Sum_probs=31.9

Q ss_pred             CChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHhhcccc---cccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 009143          415 GDLSNAFSIRDLMLSFGV-SSNVFTFNALILAETRGAS---CNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHC  487 (542)
Q Consensus       415 g~~~~A~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~---~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~  487 (542)
                      +++.....+|+.+++.|+ .|+..+|+.++.+.+....   .-.+++-..+.+++.|+..+++|+..+|+.++..+.
T Consensus        39 ~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Ll  115 (120)
T PF08579_consen   39 EDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLL  115 (120)
T ss_pred             cchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            444444444444444444 4444444444444221100   000123334455555555555555555555555443

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 [, , ].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.60  E-value=0.0044  Score=52.69  Aligned_cols=89  Identities=15%  Similarity=0.082  Sum_probs=51.7

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC--hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPN--RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTI  266 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  266 (542)
                      ..+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+.+.+...+    .+...+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~  111 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP----KQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----ccHHHHHH
Confidence            3455555556666666666666666654322211  24555666666666777777776666666554    45555666


Q ss_pred             HHHHHHhcCCHHHHH
Q 009143          267 LMDSYFKNGDKFQAL  281 (542)
Q Consensus       267 l~~~~~~~g~~~~a~  281 (542)
                      +...+...|+...+.
T Consensus       112 lg~~~~~~g~~~~a~  126 (172)
T PRK02603        112 IAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHcCChHhHh
Confidence            666666666544443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.59  E-value=0.0057  Score=49.62  Aligned_cols=90  Identities=12%  Similarity=0.032  Sum_probs=43.7

Q ss_pred             HHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          195 ITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       195 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      ...+...|++++|..+|+.+.... +-+..-|..|.-++-..|++++|+..+......++    .+...+-.+..++...
T Consensus        42 A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~----ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         42 AMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI----DAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC----CCchHHHHHHHHHHHc
Confidence            333444555555555555544432 11233344444444455555555555555555444    4445555555555555


Q ss_pred             CCHHHHHHHHHHHHH
Q 009143          275 GDKFQALALWNDMFQ  289 (542)
Q Consensus       275 g~~~~a~~~~~~~~~  289 (542)
                      |+.+.|.+.|+..+.
T Consensus       117 G~~~~A~~aF~~Ai~  131 (157)
T PRK15363        117 DNVCYAIKALKAVVR  131 (157)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.58  E-value=0.00016  Score=53.00  Aligned_cols=47  Identities=23%  Similarity=0.441  Sum_probs=18.2

Q ss_pred             CChhHHHHHHHHHhhCCCC-CCHHhHHHHHHHHHHcCChhhHHHHHHH
Q 009143          167 GDLEKADHVIREMSEMRPS-PNCATYNAFITGYCRVNELDKALHLFST  213 (542)
Q Consensus       167 g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~  213 (542)
                      |+++.|+.+++++.+..+. ++...+-.+..+|.+.|++++|..++++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3444444444444443321 1222223334444444444444444444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.58  E-value=0.0076  Score=60.48  Aligned_cols=135  Identities=11%  Similarity=0.060  Sum_probs=64.1

Q ss_pred             CCCChHHHHHHHHHHHhc-----CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC--------CHHHHHHHHH
Q 009143          219 IRPNRVTHNILVHALCKK-----GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG--------DKFQALALWN  285 (542)
Q Consensus       219 ~~p~~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~a~~~~~  285 (542)
                      .+.+...|...+++....     ++...|..+|+++++.++    .....|..+..++....        +...+.+..+
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP----~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEP----DFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            345556666666554432     225567777777777665    45555554444332211        1122222222


Q ss_pred             HHHHC-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          286 DMFQK-NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       286 ~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      +.... ..+.+...|..+.-.+...|++++|...++++.+.  .|+...|..+...+...|+.++|...+.+...
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            22221 11233344444444444445555555555555544  23444555555555555555555555555444

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.58  E-value=0.0051  Score=52.26  Aligned_cols=93  Identities=14%  Similarity=0.086  Sum_probs=67.1

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVL  302 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  302 (542)
                      ...+..+...+...|++++|...+++.++..+.. ......+..+...+.+.|++++|...+++..+.. +.+...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDP-NDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc-chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            3456777778888899999999998888765411 1124678888888888888888888888888764 3456667777


Q ss_pred             HHHHHhCCCHHHHHH
Q 009143          303 INGFCLNGDISSAFA  317 (542)
Q Consensus       303 i~~~~~~~~~~~A~~  317 (542)
                      ...+...|+...+..
T Consensus       113 g~~~~~~g~~~~a~~  127 (172)
T PRK02603        113 AVIYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHHHcCChHhHhh
Confidence            777777776544443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.56  E-value=0.0094  Score=55.27  Aligned_cols=96  Identities=15%  Similarity=0.187  Sum_probs=44.3

Q ss_pred             HHHHHHHHHhc-CChHHHHHHHHHHHhCC-CCCCHH----HHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCC----
Q 009143          404 WNVIIDGYGRC-GDLSNAFSIRDLMLSFG-VSSNVF----TFNALILAETRGASCNLGHIHLALQLYDEMLRRGIT----  473 (542)
Q Consensus       404 ~~~li~~~~~~-g~~~~A~~~~~~m~~~~-~~p~~~----~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~----  473 (542)
                      +..+...|... |++++|.+.|++..+.- ......    .+..+...     +.+.|++++|.++|++.......    
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l-----~~~l~~y~~A~~~~e~~~~~~l~~~l~  191 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADL-----YARLGRYEEAIEIYEEVAKKCLENNLL  191 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-----HHHTT-HHHHHHHHHHHHHTCCCHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHH-----HHHhCCHHHHHHHHHHHHHHhhccccc
Confidence            33444455555 67777777776665410 000111    12222222     55666777777777666653221    


Q ss_pred             -CCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          474 -PDI-ITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       474 -p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                       ++. ..|...+-++...|++..|.+.+++...
T Consensus       192 ~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  192 KYSAKEYFLKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             GHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             chhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             111 1222333344556666666666666655

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.0049  Score=55.21  Aligned_cols=108  Identities=19%  Similarity=0.235  Sum_probs=60.2

Q ss_pred             HHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC---ChhHHHHHHHHHHhCC
Q 009143          177 REMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG---LLGDAVKFLGEVLADD  253 (542)
Q Consensus       177 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~  253 (542)
                      +.-+..+| -|...|-.|..+|...|+++.|..-|.+..+. -.++...+..+..++....   ...++.++|++++..+
T Consensus       146 e~~L~~nP-~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D  223 (287)
T COG4235         146 ETHLQQNP-GDAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD  223 (287)
T ss_pred             HHHHHhCC-CCchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC
Confidence            33333444 35666666666666666666666666666554 1234444444444443321   2345566666666655


Q ss_pred             CCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          254 DGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       254 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +    .++.+...|...+...|++.+|...|+.|.+.
T Consensus       224 ~----~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         224 P----ANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             C----ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            5    55666666666666666666666666666655

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.55  E-value=0.071  Score=49.47  Aligned_cols=250  Identities=18%  Similarity=0.122  Sum_probs=110.0

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      .|+++.|.+-|+.|+....    .-..-...|.-..-+.|+.+.|..+-++....- +.-...+...+...|..|+++.|
T Consensus       133 eG~~~~Ar~kfeAMl~dPE----tRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         133 EGDYEDARKKFEAMLDDPE----TRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             cCchHHHHHHHHHHhcChH----HHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            4555555555555543211    111111222222234455555555555554432 22334455555556666666666


Q ss_pred             HHHHHHHHHcC-CCCCHHH--HHHHHHHHH--h-cCCHHHHHHHHHHHHHCCCCCChhh-HHHHHHHHHhcCCHHHHHHH
Q 009143          316 FAYFCQMLKRG-FLPDVIT--YNTLLNCLC--K-QGKLDEASHFYGVLSKTGVAPDQIS-YKTIIQGLCIHGDIVKAREF  388 (542)
Q Consensus       316 ~~~~~~~~~~~-~~p~~~~--~~~li~~~~--~-~g~~~~A~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~  388 (542)
                      +++++.-.... +.++..-  -..|+.+-.  . .-+...|...-.+..+  +.||..- -..-..++.+.|+..++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhH
Confidence            66655544322 2222211  111221111  0 1133344443333333  3344321 22233456666666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCCCHHH-HHHHHHHhhcccccccCChHHHHHHHHH
Q 009143          389 LLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS-FGVSSNVFT-FNALILAETRGASCNLGHIHLALQLYDE  466 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~-~~~ll~~~~~~~~~~~g~~~~A~~~~~~  466 (542)
                      ++.+-+..+.|+..    .+..+.+.|+.  +..-+++... ..++||... ...+..+     -...|++..|..--+.
T Consensus       286 lE~aWK~ePHP~ia----~lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~a-----Alda~e~~~ARa~Aea  354 (531)
T COG3898         286 LETAWKAEPHPDIA----LLYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEA-----ALDAGEFSAARAKAEA  354 (531)
T ss_pred             HHHHHhcCCChHHH----HHHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHH-----HHhccchHHHHHHHHH
Confidence            66666655444322    11122333432  2222333222 123444322 2222222     2334666666555554


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHhHc
Q 009143          467 MLRRGITPDIITYTELIKGHCA-RGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       467 ~~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~  505 (542)
                      ..+.  .|....|..|.+.-.. .|+-.++...+.+..+.
T Consensus       355 a~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         355 AARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             Hhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            4443  5666666666665544 36666666666666553

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.54  E-value=0.0021  Score=54.45  Aligned_cols=81  Identities=12%  Similarity=-0.025  Sum_probs=47.8

Q ss_pred             HHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCC--ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          188 CATYNAFITGYCRVNELDKALHLFSTMANNGIRP--NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       188 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      ...|..+...+...|++++|+..|++.......+  ...++..+...+...|++++|.+.+++.+...+    .....+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~----~~~~~~~  110 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNP----FLPQALN  110 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----CcHHHHH
Confidence            3445555566666677777777766665442111  123566666677777777777777777766544    3444555


Q ss_pred             HHHHHHH
Q 009143          266 ILMDSYF  272 (542)
Q Consensus       266 ~l~~~~~  272 (542)
                      .+...+.
T Consensus       111 ~la~i~~  117 (168)
T CHL00033        111 NMAVICH  117 (168)
T ss_pred             HHHHHHH
Confidence            5555555

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.54  E-value=0.0036  Score=60.03  Aligned_cols=92  Identities=12%  Similarity=-0.015  Sum_probs=50.7

Q ss_pred             HHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChh
Q 009143          161 NELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLG  240 (542)
Q Consensus       161 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  240 (542)
                      ..+...|++++|++.|+++++..+. +...|..+..+|.+.|++++|+..++++.... +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            3444556666666666666555442 44555555555556666666666666555542 223445555555555556666


Q ss_pred             HHHHHHHHHHhCCC
Q 009143          241 DAVKFLGEVLADDD  254 (542)
Q Consensus       241 ~a~~~~~~~~~~~~  254 (542)
                      +|...|++.+..++
T Consensus        88 eA~~~~~~al~l~P  101 (356)
T PLN03088         88 TAKAALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHHHHhCC
Confidence            66666655555544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.54  E-value=0.12  Score=51.69  Aligned_cols=124  Identities=13%  Similarity=0.049  Sum_probs=64.7

Q ss_pred             CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhC-CCCC--------CHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCC
Q 009143          150 VPDVLTHNYLVNELCKIGDLEKADHVIREMSEM-RPSP--------NCATYNAFITGYCRVNELDKALHLFSTMANNGIR  220 (542)
Q Consensus       150 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  220 (542)
                      .|.+..|..+.......-.++.|...|-+.... |++.        +...-.+=+.+  --|++++|.++|-+|.+..  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~--~~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhh--
Confidence            577888888888877777788887777665431 1110        00011111222  2478888888887765542  


Q ss_pred             CChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          221 PNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWND  286 (542)
Q Consensus       221 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  286 (542)
                             ..+..+.+.|++-...++++.--....  ...-..+|+.+...+.....+++|.+.+..
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g~~d~d--D~~~e~A~r~ig~~fa~~~~We~A~~yY~~  821 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNGGSDDD--DEGKEDAFRNIGETFAEMMEWEEAAKYYSY  821 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHccCCCcc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                   133444555665555554432111100  001224555555555555555555555543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.52  E-value=0.006  Score=47.61  Aligned_cols=92  Identities=16%  Similarity=0.177  Sum_probs=45.3

Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCC--hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPN--RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK  273 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  273 (542)
                      .++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..++++.....+ ..+.+......+..++..
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p-~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFP-DDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CccccHHHHHHHHHHHHH
Confidence            344455666666666666655554432  23444455555556666666666665555433 100122222333344555


Q ss_pred             cCCHHHHHHHHHHHH
Q 009143          274 NGDKFQALALWNDMF  288 (542)
Q Consensus       274 ~g~~~~a~~~~~~~~  288 (542)
                      .|+.++|++.+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            555555555554443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.52  E-value=0.0031  Score=58.22  Aligned_cols=130  Identities=15%  Similarity=0.029  Sum_probs=58.8

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh-cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK-KGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      +|-.++...-+.+..+.|..+|.+..+.+ ..+...|...+..-.. .++.+.|.++|+..++.-+    .+...|...+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~----~~~~~~~~Y~   77 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFP----SDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHT----T-HHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC----CCHHHHHHHH
Confidence            34455555555555555555555554321 1223333333333222 3334445555555555433    4455555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDI---VAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +.+.+.++.+.|..+|++.... ++++.   ..|...+..=.+.|+.+.+..+.+++.+.
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5555555555555555555443 11111   24555555555555555555555554443

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.50  E-value=0.0017  Score=57.80  Aligned_cols=95  Identities=19%  Similarity=0.152  Sum_probs=51.3

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHH
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDIS  313 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  313 (542)
                      .+.+++.+|+..|.++++..+    .+.+.|..-..+|++.|.++.|++-.+..+..+ +....+|..|..+|...|+++
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~P----~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELDP----TNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcCC----CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            345555555555555555554    555555555555555555555555555555443 333455555555555555555


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH
Q 009143          314 SAFAYFCQMLKRGFLPDVITYN  335 (542)
Q Consensus       314 ~A~~~~~~~~~~~~~p~~~~~~  335 (542)
                      +|++.|++.++.  .|+..+|-
T Consensus       167 ~A~~aykKaLel--dP~Ne~~K  186 (304)
T KOG0553|consen  167 EAIEAYKKALEL--DPDNESYK  186 (304)
T ss_pred             HHHHHHHhhhcc--CCCcHHHH
Confidence            555555555543  44444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.49  E-value=0.042  Score=45.42  Aligned_cols=103  Identities=8%  Similarity=0.037  Sum_probs=48.2

Q ss_pred             CCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          186 PNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       186 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      |++..--.|..++.+.|+..+|...|++...--+-.|......+.++....+++..|...++++.+..+..  .......
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~--r~pd~~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAF--RSPDGHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCcc--CCCCchH
Confidence            34443444455555555555555555554432233344444455555555555555555555555444322  2222233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .+.+.+...|.+.+|...|+.....
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh
Confidence            3444444445555555555444443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.49  E-value=0.002  Score=57.30  Aligned_cols=95  Identities=19%  Similarity=0.143  Sum_probs=58.5

Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCH
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDK  277 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  277 (542)
                      ..+.+++++|++.|.+.++.. +-|.+-|..-..+|++.|.++.|.+-.+..+..++    ....+|..|..+|...|++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp----~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP----HYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh----HHHHHHHHHHHHHHccCcH
Confidence            445566666666666666542 22455556666666666666666666666666665    5566666666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHH
Q 009143          278 FQALALWNDMFQKNIQTDIVAY  299 (542)
Q Consensus       278 ~~a~~~~~~~~~~~~~~~~~~~  299 (542)
                      ++|.+.|++.++.  .|+-.+|
T Consensus       166 ~~A~~aykKaLel--dP~Ne~~  185 (304)
T KOG0553|consen  166 EEAIEAYKKALEL--DPDNESY  185 (304)
T ss_pred             HHHHHHHHhhhcc--CCCcHHH
Confidence            6666666666654  3444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.48  E-value=0.044  Score=45.34  Aligned_cols=128  Identities=15%  Similarity=0.116  Sum_probs=72.7

Q ss_pred             CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCC-CCChHHHHH
Q 009143          150 VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGI-RPNRVTHNI  228 (542)
Q Consensus       150 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~  228 (542)
                      .|++.....|..++...|+..+|...|++....-..-|....-.+.++....+++..|...++.+-+... .-++.+...
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            4566666666666666777777777766665543344555555566666666677777776666655420 011233444


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA  282 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  282 (542)
                      +.+.+...|+..+|+.-|+..+.-.+     +...-......+.+.|+.+++..
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~yp-----g~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYYP-----GPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhCC-----CHHHHHHHHHHHHHhcchhHHHH
Confidence            55666666777777777766666543     22333333445555665555443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.48  E-value=0.013  Score=51.33  Aligned_cols=76  Identities=18%  Similarity=0.166  Sum_probs=45.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGT--VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      .-.....+.+.|++.+|+..|+.+...-.  +--......++.++.+.|+++.|...++++.+..|......+...+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~   85 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYML   85 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHH
Confidence            34445566677888888888888887521  11234455677778888888888888888777655433333333333

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.43  E-value=0.12  Score=49.02  Aligned_cols=94  Identities=10%  Similarity=0.016  Sum_probs=70.0

Q ss_pred             HHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhC
Q 009143          103 TMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM  182 (542)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  182 (542)
                      ++++.+.   .-+.|..+|-.||.-+..+|..++..+++++|..- .+--..+|..-+.+-...+++.....+|.+.+..
T Consensus        30 rLRerIk---dNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k  105 (660)
T COG5107          30 RLRERIK---DNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK  105 (660)
T ss_pred             HHHHHhh---cCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh
Confidence            4555554   33467889999999999999999999999999763 3334557777777777788999999999998875


Q ss_pred             CCCCCHHhHHHHHHHHHHcC
Q 009143          183 RPSPNCATYNAFITGYCRVN  202 (542)
Q Consensus       183 ~~~~~~~~~~~li~~~~~~g  202 (542)
                      ..  +...|...+..--+.+
T Consensus       106 ~l--~ldLW~lYl~YIRr~n  123 (660)
T COG5107         106 SL--NLDLWMLYLEYIRRVN  123 (660)
T ss_pred             hc--cHhHHHHHHHHHHhhC
Confidence            43  5677777777554443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.42  E-value=0.2  Score=51.68  Aligned_cols=398  Identities=14%  Similarity=0.097  Sum_probs=213.3

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      |..|...+-..|.+.|+.++|..+|++..+.  .|+......+..+|.+.+++.+-.++--++.+.-|+ +...|=++++
T Consensus        76 D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~S  152 (932)
T KOG2053|consen   76 DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPK-RAYYFWSVIS  152 (932)
T ss_pred             chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHH
Confidence            7778999999999999999999999999975  577777888888999988887665555555554343 4455555566


Q ss_pred             HHHHcC-Ch---------hhHHHHHHHHHHCC-CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          197 GYCRVN-EL---------DKALHLFSTMANNG-IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       197 ~~~~~g-~~---------~~A~~~~~~m~~~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      .+.+.- ..         .-|...++.+.+.+ -.-+..-...-...+...|.+++|..++..-.......  .+...-+
T Consensus       153 lilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~--~~~~l~~  230 (932)
T KOG2053|consen  153 LILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTS--ANLYLEN  230 (932)
T ss_pred             HHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccc--cchHHHH
Confidence            555532 12         23555666665543 22222223334455667899999999994333322212  4555556


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------------hCCCHHHHHHHHHHHHHcCCCC
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC----------------LNGDISSAFAYFCQMLKRGFLP  329 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----------------~~~~~~~A~~~~~~~~~~~~~p  329 (542)
                      .-++.+...+++.+..++-.++...| ..|   |...++.++                ..+..+...+...+.....   
T Consensus       231 ~~~dllk~l~~w~~l~~l~~~Ll~k~-~Dd---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~---  303 (932)
T KOG2053|consen  231 KKLDLLKLLNRWQELFELSSRLLEKG-NDD---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSK---  303 (932)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHHhC-Ccc---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhccc---
Confidence            77888999999999999999999886 223   322222111                1122222222222222211   


Q ss_pred             CHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CH---
Q 009143          330 DVITYNTLLNCLC---KQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP--EP---  401 (542)
Q Consensus       330 ~~~~~~~li~~~~---~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~---  401 (542)
                      ....|-+-+.+..   .-|+.+++...|-+  +-|-.|   .|..=+..|...=..++-..++..........  |.   
T Consensus       304 ~Rgp~LA~lel~kr~~~~gd~ee~~~~y~~--kfg~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l  378 (932)
T KOG2053|consen  304 SRGPYLARLELDKRYKLIGDSEEMLSYYFK--KFGDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVL  378 (932)
T ss_pred             ccCcHHHHHHHHHHhcccCChHHHHHHHHH--HhCCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHH
Confidence            1223434444443   34777776554432  222222   22222333333223333333333333221100  00   


Q ss_pred             HHHHHHHHHHHhcCC-----hHHHHHHHHHHH---hC------CCCCCHHH---------HHHHHHHhhcccccccCChH
Q 009143          402 HIWNVIIDGYGRCGD-----LSNAFSIRDLML---SF------GVSSNVFT---------FNALILAETRGASCNLGHIH  458 (542)
Q Consensus       402 ~~~~~li~~~~~~g~-----~~~A~~~~~~m~---~~------~~~p~~~~---------~~~ll~~~~~~~~~~~g~~~  458 (542)
                      ..+...+....-.|.     .+.-..++.+..   +.      ++-|+..+         .+.++..     +.+.++..
T Consensus       379 ~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~-----~rktnd~~  453 (932)
T KOG2053|consen  379 QQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDL-----WRKTNDLT  453 (932)
T ss_pred             HHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHH-----HHhcCcHH
Confidence            001122222222221     122222232211   11      23334332         2334443     44555544


Q ss_pred             ---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHH
Q 009143          459 ---LALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQ  535 (542)
Q Consensus       459 ---~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  535 (542)
                         +|+-+++.-.... +.|..+-..+|+.|+-.|-+..|.++++.+.-..+.-|..-| .+..-+...|++..+...++
T Consensus       454 ~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh-~~~~~~~t~g~~~~~s~~~~  531 (932)
T KOG2053|consen  454 DLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGH-LIFRRAETSGRSSFASNTFN  531 (932)
T ss_pred             HHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchH-HHHHHHHhcccchhHHHHHH
Confidence               4555555444432 234555667889999999999999999888665565554443 23345556677777776666


Q ss_pred             HHh
Q 009143          536 KWL  538 (542)
Q Consensus       536 ~~l  538 (542)
                      ..+
T Consensus       532 ~~l  534 (932)
T KOG2053|consen  532 EHL  534 (932)
T ss_pred             HHH
Confidence            554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.42  E-value=0.012  Score=59.10  Aligned_cols=145  Identities=17%  Similarity=0.114  Sum_probs=104.0

Q ss_pred             CCCCCHHhHHHHHHHHHHcC-----ChhhHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcC--------ChhHHHHHHHH
Q 009143          183 RPSPNCATYNAFITGYCRVN-----ELDKALHLFSTMANNGIRPN-RVTHNILVHALCKKG--------LLGDAVKFLGE  248 (542)
Q Consensus       183 ~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g--------~~~~a~~~~~~  248 (542)
                      .++.+...|...+++.....     ....|.++|++..+.  .|+ ...|..+..++....        ++..+.+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            34568889999988865432     367999999999885  455 345554444333221        22344444444


Q ss_pred             HHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Q 009143          249 VLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFL  328 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~  328 (542)
                      ........  .+...|..+.-.+...|++++|...+++....+  |+...|..+...+...|+.++|.+.+++..+.  .
T Consensus       410 a~al~~~~--~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~  483 (517)
T PRK10153        410 IVALPELN--VLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--R  483 (517)
T ss_pred             hhhcccCc--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C
Confidence            44432112  556788888888888999999999999999885  68899999999999999999999999999886  5


Q ss_pred             CCHHHHH
Q 009143          329 PDVITYN  335 (542)
Q Consensus       329 p~~~~~~  335 (542)
                      |...+|.
T Consensus       484 P~~pt~~  490 (517)
T PRK10153        484 PGENTLY  490 (517)
T ss_pred             CCCchHH
Confidence            5555553

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.39  E-value=0.087  Score=52.55  Aligned_cols=49  Identities=22%  Similarity=0.227  Sum_probs=23.2

Q ss_pred             ccCChHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          453 NLGHIHLALQLYDEMLR-RGITPDIITYTELIKGHCARGNMKEAEEVFAK  501 (542)
Q Consensus       453 ~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  501 (542)
                      ..|.++.|++.--.+.+ ..+-|....|..+.-+-+....+-..-+.|-+
T Consensus      1033 ~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmk 1082 (1189)
T KOG2041|consen 1033 FEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMK 1082 (1189)
T ss_pred             HhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHH
Confidence            44566666554444443 23445555665555444444444433333333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.38  E-value=0.00081  Score=46.36  Aligned_cols=57  Identities=14%  Similarity=0.106  Sum_probs=31.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          483 IKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       483 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      ...+...|++++|...|++..+... -+...+..+..++...|++++|..+|+++++.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQDP-DNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCST-THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455556666666666666655432 24555555556666666666666666665543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.36  E-value=0.016  Score=45.31  Aligned_cols=93  Identities=19%  Similarity=0.103  Sum_probs=50.5

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CChhhHHHHHHHHH
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKRGFLPD--VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA--PDQISYKTIIQGLC  377 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~  377 (542)
                      +..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++........  .+......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            34455566666777777776666654433  234455556666667777777776666553211  01112222233445


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 009143          378 IHGDIVKAREFLLSMLE  394 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~  394 (542)
                      ..|+.++|++.+-..+.
T Consensus        87 ~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA  103 (120)
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            56666666666655543

>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=97.36  E-value=0.0047  Score=52.57  Aligned_cols=91  Identities=19%  Similarity=0.261  Sum_probs=54.4

Q ss_pred             CCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccccccc-----------CChHHHHH
Q 009143          399 PEPHIWNVIIDGYGRC-----GDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNL-----------GHIHLALQ  462 (542)
Q Consensus       399 ~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-----------g~~~~A~~  462 (542)
                      .+..+|..+++.|.+.     |..+=....++.|.+.|+.-|..+|+.||..+=..-+...           .+-+-|++
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            4777888888887643     5666677778888888888888888888876322211111           11233445


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009143          463 LYDEMLRRGITPDIITYTELIKGHCAR  489 (542)
Q Consensus       463 ~~~~~~~~g~~p~~~~~~~li~~~~~~  489 (542)
                      ++++|...|+-||..++..+++.+.+.
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRK  151 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence            555555555555555555555555443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.32  E-value=0.0013  Score=45.25  Aligned_cols=55  Identities=20%  Similarity=0.300  Sum_probs=27.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          231 HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       231 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      ..+.+.|++++|.+.|+++++..+    .+...+..+..++...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P----~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDP----DNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCST----THHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455555555555555555443    4455555555555555555555555555543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.31  E-value=0.16  Score=48.18  Aligned_cols=108  Identities=15%  Similarity=0.139  Sum_probs=65.8

Q ss_pred             HHHHHHHhhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHH--HhcCChHHHHHHHHHHHhC--CCCC------------C
Q 009143           89 ALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDL--CLGGKIGTALWLRRKMIQK--GTVP------------D  152 (542)
Q Consensus        89 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~--g~~p------------~  152 (542)
                      +|+...-++.+..+.......+..   | ...|..+..++  -+.+.+..|++.+..-...  +..|            |
T Consensus        52 ilnAffl~nld~Me~~l~~l~~~~---~-~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~d  127 (549)
T PF07079_consen   52 ILNAFFLNNLDLMEKQLMELRQQF---G-KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSD  127 (549)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhc---C-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhH
Confidence            445555555555544433332222   2 22355555443  4778999999887766554  3222            2


Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC----CCHHhHHHHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPS----PNCATYNAFITGYCR  200 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~li~~~~~  200 (542)
                      ...-+..++.+...|++.+++.+++++...-.+    .+..+|+.++-.+.+
T Consensus       128 f~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr  179 (549)
T PF07079_consen  128 FFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR  179 (549)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH
Confidence            222255677788999999999998888764443    788889886666554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.28  E-value=0.00097  Score=46.45  Aligned_cols=52  Identities=21%  Similarity=0.388  Sum_probs=24.8

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +.|++++|.++++++....+    .+..++..++.+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p----~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNP----DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTT----TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34445555555555544443    34444444555555555555555555544443

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.26  E-value=0.16  Score=47.20  Aligned_cols=295  Identities=16%  Similarity=0.103  Sum_probs=133.0

Q ss_pred             HHHHHHHHH--hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH--HHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          121 HVAVIRDLC--LGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNE--LCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       121 ~~~li~~~~--~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      |..|-.++.  -.|+-..|.++-.+-.+. +.-|......++.+  -.-.|+++.|.+-|+.|... |+-...-...|.-
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyl  162 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-PETRLLGLRGLYL  162 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-hHHHHHhHHHHHH
Confidence            444444443  335666666555544322 22233333333333  22346666676666666531 1111111222222


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHH--HHHHHHHH---
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVIT--STILMDSY---  271 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~--~~~l~~~~---  271 (542)
                      .--+.|..+.|.++-++....- +.-.......+...+..|+++.|+++++.-.......  +++.-  -..|+.+-   
T Consensus       163 eAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie--~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIE--KDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhc--hhhHHHHHHHHHHHHHHH
Confidence            2334566666666666654431 1223455566666666666666666666555433211  22211  11111111   


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVA-YNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA  350 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  350 (542)
                      .-.-+...|...-.+..+.  .||..- -..-..++.+.|+..++-.+++.+-+....|+  ...  +..+.+.|+  .+
T Consensus       240 ~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~--lY~~ar~gd--ta  311 (531)
T COG3898         240 LLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IAL--LYVRARSGD--TA  311 (531)
T ss_pred             HhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHH--HHHHhcCCC--cH
Confidence            1112344444444443332  333222 12223456666666666666666666532232  221  111223332  22


Q ss_pred             HHHHHHHHHC-CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHH
Q 009143          351 SHFYGVLSKT-GVAP-DQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC-GDLSNAFSIRDLM  427 (542)
Q Consensus       351 ~~~~~~~~~~-~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m  427 (542)
                      ..-++...+. ..+| +......+..+-...|++..|..--+.....  .|....|..|.+.-... |+-.++...+.+.
T Consensus       312 ~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            2222222111 1122 3344445555555666666655544444332  34555565555554433 6666666666666


Q ss_pred             HhC
Q 009143          428 LSF  430 (542)
Q Consensus       428 ~~~  430 (542)
                      ...
T Consensus       390 v~A  392 (531)
T COG3898         390 VKA  392 (531)
T ss_pred             hcC
Confidence            554

>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=97.25  E-value=0.0088  Score=49.22  Aligned_cols=58  Identities=21%  Similarity=0.312  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 009143          264 STILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQM  322 (542)
Q Consensus       264 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  322 (542)
                      ...++..+...|++++|.++.+.+.... |.+...|..+|.++...|+..+|.+.|+++
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3344444555555555555555555544 445555555555555555555555555554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.023  Score=51.01  Aligned_cols=99  Identities=18%  Similarity=0.132  Sum_probs=50.9

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG---DKFQALALWNDMFQKNIQTDIVA  298 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~  298 (542)
                      |...|..|..+|...|+.+.|..-|.+..+..+    ++...+..+..++....   ...++..+|+++...+ +.|+.+
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g----~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~ira  229 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAG----DNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRA  229 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHH
Confidence            445555555555555555555555555555544    44444444444443322   2344555555555544 344455


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          299 YNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       299 ~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      ...|...+...|++.+|...|+.|.+.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            555555555555555555555555554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.24  E-value=0.11  Score=45.86  Aligned_cols=80  Identities=14%  Similarity=0.056  Sum_probs=57.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGT--VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      .|+. +..-.+.|++++|.+.|+.+.....  +-...+.-.++-++-+.++++.|+..+++.....|.....-|-..|.+
T Consensus        37 LY~~-g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylkg  115 (254)
T COG4105          37 LYNE-GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKG  115 (254)
T ss_pred             HHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHH
Confidence            3444 4455688999999999999987621  223445566777788899999999999998887665445566666666


Q ss_pred             HHH
Q 009143          198 YCR  200 (542)
Q Consensus       198 ~~~  200 (542)
                      ++.
T Consensus       116 Ls~  118 (254)
T COG4105         116 LSY  118 (254)
T ss_pred             HHH
Confidence            654

>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=97.21  E-value=0.0064  Score=51.76  Aligned_cols=114  Identities=19%  Similarity=0.234  Sum_probs=71.8

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 009143          328 LPDVITYNTLLNCLCKQ-----GKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPH  402 (542)
Q Consensus       328 ~p~~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  402 (542)
                      ..+..+|..+++.|.+.     |..+=....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+            
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ------------  109 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQ------------  109 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHH------------
Confidence            44667777777776543     5566666666777777777777777777766654 3221 011111            


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHH
Q 009143          403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEML  468 (542)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~  468 (542)
                         ++..-|  -.+-+-|++++++|...|+.||..|+..++..+        |....+.+-+.+|.
T Consensus       110 ---~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iF--------G~~s~p~~K~~rmm  162 (228)
T PF06239_consen  110 ---AEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIF--------GRKSHPMKKYRRMM  162 (228)
T ss_pred             ---HHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHh--------ccccHHHHHHHHHH
Confidence               111111  234577889999999999999999999999885        55555555555443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.20  E-value=0.0016  Score=45.39  Aligned_cols=52  Identities=25%  Similarity=0.320  Sum_probs=28.7

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          273 KNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       273 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +.|++++|.+.|+.+.+.. +.+...+..++.+|.+.|++++|.++++++...
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            4555566666666655543 335555555556666666666666666555554

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.19  E-value=0.048  Score=47.71  Aligned_cols=49  Identities=14%  Similarity=0.042  Sum_probs=26.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChHHH
Q 009143          372 IIQGLCIHGDIVKAREFLLSMLEKSVVP--EPHIWNVIIDGYGRCGDLSNA  420 (542)
Q Consensus       372 li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A  420 (542)
                      +...|.+.|.+..|..-++.+++.-+..  .....-.++.+|.+.|..+.+
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            4455666777777777777766642210  112345556666666666543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.19  E-value=0.0061  Score=56.51  Aligned_cols=132  Identities=20%  Similarity=0.215  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHH----HcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CC-CCCChh
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQML----KRGFL-PDVITYNTLLNCLCKQGKLDEASHFYGVLSK----TG-VAPDQI  367 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~----~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~-~~~~~~  367 (542)
                      .|..|.+.|.-.|+++.|+...+.-.    +-|-. .....+..+.+++.-.|+++.|.+.|.....    .| ......
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45566666666778888877655422    22211 1234567777888888888888877765432    22 122344


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLEK-----SVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      ...+|...|.-..++++|+..+.+-+..     +..-....+..|..+|...|..++|+...+..++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5666777777777788887776654321     1112456677888888888888888776665443

>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=97.16  E-value=0.0023  Score=44.70  Aligned_cols=61  Identities=16%  Similarity=0.192  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG-DKFQALALWNDMF  288 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~  288 (542)
                      .+|..+...+...|++++|+..|.+.++.++    .+..+|..+..++.+.| ++++|++.+++..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p----~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDP----NNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHST----THHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3444444444444444444444444444443    44444444444444444 3444444444443

...

>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=97.14  E-value=0.007  Score=49.82  Aligned_cols=98  Identities=20%  Similarity=0.317  Sum_probs=60.4

Q ss_pred             HHhcCChHHHHHHHHHHHhC--C-CCCCh------------------hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCC
Q 009143          128 LCLGGKIGTALWLRRKMIQK--G-TVPDV------------------LTHNYLVNELCKIGDLEKADHVIREMSEMRPSP  186 (542)
Q Consensus       128 ~~~~g~~~~A~~~~~~m~~~--g-~~p~~------------------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  186 (542)
                      ....|+.+.+...++++...  | +-|+.                  .+...++..+...|++++|.++.+.+....| -
T Consensus        16 ~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~   94 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALDP-Y   94 (146)
T ss_dssp             HHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST-T
T ss_pred             HHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCC-C
Confidence            34566777777777777653  2 11221                  1123355566678888888888888887765 4


Q ss_pred             CHHhHHHHHHHHHHcCChhhHHHHHHHHHH-----CCCCCChHHH
Q 009143          187 NCATYNAFITGYCRVNELDKALHLFSTMAN-----NGIRPNRVTH  226 (542)
Q Consensus       187 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~  226 (542)
                      +...|..+|.+|...|+..+|.+.|+++.+     .|+.|+..+-
T Consensus        95 ~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   95 DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            777888888888888888888888877643     4777776653

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=97.10  E-value=0.0035  Score=58.04  Aligned_cols=131  Identities=16%  Similarity=0.063  Sum_probs=65.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHh----CCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh----CCC-CCCHH
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLE----KSV-VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS----FGV-SSNVF  437 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~-~p~~~  437 (542)
                      .|..|...|.-.|+++.|+...+.-++    -|- ......+..+..++.-.|+++.|.+.|+....    .|- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            444555555556777777655544322    111 11233466667777777777777776665432    111 11111


Q ss_pred             HHHHHHHHhhcccccccCChHHHHHHHHHHHh----C-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009143          438 TFNALILAETRGASCNLGHIHLALQLYDEMLR----R-GITPDIITYTELIKGHCARGNMKEAEEVFAKIQ  503 (542)
Q Consensus       438 ~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~----~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  503 (542)
                      +..++-..     |.-..+++.|+.++.+-..    . ...-....+-+|..+|...|..++|..+.+.-.
T Consensus       277 scYSLgNt-----ytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNT-----YTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            11222222     2223456666666654432    1 011133556667777777777777776655544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.09  E-value=0.28  Score=46.70  Aligned_cols=124  Identities=19%  Similarity=0.158  Sum_probs=75.5

Q ss_pred             HHhcCC-hHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhccccc---ccCChHHHHHHHHHHHhCCCCCCH----HHHHH
Q 009143          411 YGRCGD-LSNAFSIRDLMLSFGVSSN-VFTFNALILAETRGASC---NLGHIHLALQLYDEMLRRGITPDI----ITYTE  481 (542)
Q Consensus       411 ~~~~g~-~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~---~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~  481 (542)
                      +-+.|. -++|+++++.+.+.  .|. ...-|.+.. +....|.   ....+.+-.++-+-+.+.|+.|-.    ..-|.
T Consensus       389 lW~~g~~dekalnLLk~il~f--t~yD~ec~n~v~~-fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~  465 (549)
T PF07079_consen  389 LWEIGQCDEKALNLLKLILQF--TNYDIECENIVFL-FVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANF  465 (549)
T ss_pred             HHhcCCccHHHHHHHHHHHHh--ccccHHHHHHHHH-HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHH
Confidence            334454 78888888888873  332 222222211 1111111   123344444444444556777633    34455


Q ss_pred             HHHH--HHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          482 LIKG--HCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       482 li~~--~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      |.++  +..+|++.++.-.-.-+.+  +.|++.+|..++-++....++++|..++++..-
T Consensus       466 LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  466 LADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            5544  4568999988766555544  468999999999999999999999999987643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.06  E-value=0.19  Score=44.15  Aligned_cols=138  Identities=12%  Similarity=0.047  Sum_probs=101.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHh
Q 009143          367 ISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAE  446 (542)
Q Consensus       367 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  446 (542)
                      .+.+.++..+.-.|.+.-...++++.++...+.++.....|+..-.+.||.+.|...|++..+..-..|..+++.++.--
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            34556667777778888888999999988877788888999999999999999999999877644445555555554332


Q ss_pred             hcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          447 TRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       447 ~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      ....+.-.+++..|...+.+..... ..|+..-|.-.-+..-.|+..+|.+.++.|...
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            2223566778888888888887753 234555555555556688999999999999885

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.06  E-value=0.018  Score=52.21  Aligned_cols=91  Identities=16%  Similarity=0.089  Sum_probs=41.8

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhCCC
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN--IQTDIVAYNVLINGFCLNGD  311 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~  311 (542)
                      .+.|++++|...|+.+++..+ ...-...++..+...|...|++++|...|+.+.+..  -+.....+..+...+...|+
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP-~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~  232 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYP-DSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGD  232 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCc-CCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCC
Confidence            344555555555555555443 111112344445555555555555555555554331  11123333334444445555


Q ss_pred             HHHHHHHHHHHHHc
Q 009143          312 ISSAFAYFCQMLKR  325 (542)
Q Consensus       312 ~~~A~~~~~~~~~~  325 (542)
                      .++|...|+++.+.
T Consensus       233 ~~~A~~~~~~vi~~  246 (263)
T PRK10803        233 TAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55555555555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.05  E-value=0.24  Score=46.96  Aligned_cols=32  Identities=22%  Similarity=0.202  Sum_probs=22.7

Q ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          294 TDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       294 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .+-..+.+++.+..-.|+.++|.+.+++|.+.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            45555667777777777777777777777765

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.03  E-value=0.31  Score=46.16  Aligned_cols=32  Identities=9%  Similarity=0.130  Sum_probs=24.8

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          399 PEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       399 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      .+-..+.+++.+..-.|+.++|.+..++|...
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            46666777788888888888888888888764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.01  E-value=0.015  Score=52.67  Aligned_cols=99  Identities=20%  Similarity=0.213  Sum_probs=66.6

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh----HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR----VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITS  264 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  264 (542)
                      ..|...+..+.+.|++++|...|+.+.+.-  |+.    ..+..+...|...|++++|...|..+++..+ ..+....++
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP-~s~~~~dAl  220 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYP-KSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCcchhHHH
Confidence            345555554556677788887777777642  332    4566677777778888888888888877655 222345556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      ..++..+...|+.++|.+.|+.+.+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            66667777788888888888877765

>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=0.0025  Score=45.83  Aligned_cols=64  Identities=23%  Similarity=0.226  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhHc----CCC-CC-hhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          477 ITYTELIKGHCARGNMKEAEEVFAKIQTL----GLA-ID-HIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       477 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      .+|+.+...|...|++++|+..+++..+.    |.. |+ ..++..+..++...|++++|.++++++++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            57888999999999999999999988752    211 22 567888899999999999999999998764

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.90  E-value=0.38  Score=45.06  Aligned_cols=107  Identities=18%  Similarity=0.224  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC  377 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  377 (542)
                      +.+..+.-+...|+...|.++-.+..    .|+...|...+.+++..+++++-.++-..      .-++..|-.++..|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            34444555566666666666544432    46677777777777777777766554321      123466777777777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 009143          378 IHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIR  424 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  424 (542)
                      +.|+..+|..++.++     +     +..-+..|.+.|++.+|.+.-
T Consensus       249 ~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHH
Confidence            777777777666551     1     245566667777777776543

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

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.86  E-value=0.65  Score=47.14  Aligned_cols=113  Identities=15%  Similarity=0.165  Sum_probs=76.8

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALI  443 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  443 (542)
                      -...+.+--+.-+...|+..+|.++-.+..-    ||...|..-+.+++..+++++-+++-+.+..      ..-|.-+.
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFV  751 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFV  751 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHH
Confidence            3344555556666777888888877766543    6888888888888888888887776655442      23344455


Q ss_pred             HHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          444 LAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFA  500 (542)
Q Consensus       444 ~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  500 (542)
                      .+     +.+.|+.++|.+++-+....         .-.+.+|.+.|++.+|.++--
T Consensus       752 e~-----c~~~~n~~EA~KYiprv~~l---------~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  752 EA-----CLKQGNKDEAKKYIPRVGGL---------QEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HH-----HHhcccHHHHhhhhhccCCh---------HHHHHHHHHhccHHHHHHHHH
Confidence            55     45668888888887654321         156778888888888876543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.85  E-value=0.061  Score=53.07  Aligned_cols=221  Identities=13%  Similarity=0.106  Sum_probs=109.0

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHH---------HHHhhCCCCCCHHhHHHHHHHHHHcCC--hhhHHHHHHHHHHCCCCC
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVI---------REMSEMRPSPNCATYNAFITGYCRVNE--LDKALHLFSTMANNGIRP  221 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~---------~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p  221 (542)
                      +..+.+-+-.|...|.+++|.++-         +.+...  ..+.-.++..=.+|.+..+  +-+-+.-++++++.|-.|
T Consensus       556 evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P  633 (1081)
T KOG1538|consen  556 EVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGETP  633 (1081)
T ss_pred             cccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCc
Confidence            334444455566677777764331         111110  0122234444455555544  334445566777788777


Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHH-----HHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTI-----LMDSYFKNGDKFQALALWNDMFQKNIQTDI  296 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  296 (542)
                      +...   +...++-.|++.+|.++|.+--..+     .-...|+-     +.+-+...|..++-..+.++-.+.  ..+.
T Consensus       634 ~~iL---lA~~~Ay~gKF~EAAklFk~~G~en-----RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~  703 (1081)
T KOG1538|consen  634 NDLL---LADVFAYQGKFHEAAKLFKRSGHEN-----RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--ARNI  703 (1081)
T ss_pred             hHHH---HHHHHHhhhhHHHHHHHHHHcCchh-----hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--hhhc
Confidence            7654   4455667788888888876542111     11111111     223334444444433333322111  0011


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHH------HHHcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 009143          297 VAYNVLINGFCLNGDISSAFAYFCQ------MLKRGF---LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQI  367 (542)
Q Consensus       297 ~~~~~li~~~~~~~~~~~A~~~~~~------~~~~~~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  367 (542)
                      .--.+....+...|+.++|..+..+      +.+-+-   ..+..+...+...+.+...+..|-++|..|-.        
T Consensus       704 kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD--------  775 (1081)
T KOG1538|consen  704 KEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGD--------  775 (1081)
T ss_pred             CCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhcc--------
Confidence            1111233445556666666654321      111111   22344555555555566677777777766533        


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLE  394 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~  394 (542)
                       ...+++.+...+++++|..+-++..+
T Consensus       776 -~ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  776 -LKSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             -HHHHhhheeecccchHhHhhhhhCcc
Confidence             23466777778888888877766544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.29  Score=44.04  Aligned_cols=51  Identities=22%  Similarity=0.259  Sum_probs=24.7

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 009143          128 LCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREM  179 (542)
Q Consensus       128 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  179 (542)
                      ....|++.+|..+|+...+.. +-+......++.+|...|+++.|..++..+
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            344455555555555555432 112334444555555555555555555444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.62  E-value=0.016  Score=40.91  Aligned_cols=53  Identities=17%  Similarity=0.093  Sum_probs=22.1

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      |.+.+++++|.++++.++..++    .+...+.....++.+.|++++|.+.|+...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~p----~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELDP----DDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCc----ccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3344444444444444444333    3333444444444444444444444444443

>PRK15331 chaperone protein SicA; Provisional

Probab=96.60  E-value=0.019  Score=46.88  Aligned_cols=87  Identities=11%  Similarity=0.008  Sum_probs=39.9

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009143          411 YGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARG  490 (542)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  490 (542)
                      +-..|++++|..+|+-+.-.  .|...-|..-+.+|    +-..+++++|...|......+. -|+..+-....+|...|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~--d~~n~~Y~~GLaa~----~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIY--DFYNPDYTMGLAAV----CQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhC
Confidence            34455555555555555542  33333343333332    2334555555555554443321 12222333444555555


Q ss_pred             CHHHHHHHHHHHhH
Q 009143          491 NMKEAEEVFAKIQT  504 (542)
Q Consensus       491 ~~~~A~~~~~~m~~  504 (542)
                      +.+.|...|+...+
T Consensus       120 ~~~~A~~~f~~a~~  133 (165)
T PRK15331        120 KAAKARQCFELVNE  133 (165)
T ss_pred             CHHHHHHHHHHHHh
Confidence            55555555555544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.60  E-value=0.018  Score=40.65  Aligned_cols=56  Identities=14%  Similarity=0.137  Sum_probs=35.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      ..|.+.+++++|.++++.+...+ |.++..+.....++.+.|++++|.+.|+...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            45566666666666666666654 445556666666666666666666666666655

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.44  E-value=0.064  Score=47.63  Aligned_cols=90  Identities=19%  Similarity=0.130  Sum_probs=41.6

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhCCCH
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN--IQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~  312 (542)
                      +.|++..|...|...++..+ ..+-....+.-|..++...|++++|..+|..+.+.-  .+.-+.++-.|.....+.|+.
T Consensus       153 ksgdy~~A~~~F~~fi~~YP-~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~  231 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYP-NSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNT  231 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCC-CCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCH
Confidence            44445555555555555444 222233344445555555555555555555544431  111233444444455555555


Q ss_pred             HHHHHHHHHHHHc
Q 009143          313 SSAFAYFCQMLKR  325 (542)
Q Consensus       313 ~~A~~~~~~~~~~  325 (542)
                      ++|...|+++.+.
T Consensus       232 d~A~atl~qv~k~  244 (262)
T COG1729         232 DEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>PRK15331 chaperone protein SicA; Provisional

Probab=96.27  E-value=0.41  Score=39.32  Aligned_cols=88  Identities=15%  Similarity=-0.009  Sum_probs=56.3

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD  311 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  311 (542)
                      -+...|++++|..+|.-+...++    .+..-|..|..++-..+++++|...|......+ .-|+..+.....++...|+
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~~  120 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDF----YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCc----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCC
Confidence            34466777777777776666555    555566666666666777777777776665544 3444445556666667777


Q ss_pred             HHHHHHHHHHHHH
Q 009143          312 ISSAFAYFCQMLK  324 (542)
Q Consensus       312 ~~~A~~~~~~~~~  324 (542)
                      .+.|...|....+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777776666665

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.17  E-value=0.87  Score=42.15  Aligned_cols=230  Identities=13%  Similarity=0.094  Sum_probs=124.7

Q ss_pred             cCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH----HHcC-CCCCHHHHHHHHHHHHhcCC
Q 009143          274 NGDKFQALALWNDMFQK--NIQTDIVAYNVLINGFCLNGDISSAFAYFCQM----LKRG-FLPDVITYNTLLNCLCKQGK  346 (542)
Q Consensus       274 ~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~----~~~~-~~p~~~~~~~li~~~~~~g~  346 (542)
                      ..+.++|+..|...+.+  +...--.+|..+..+.++.|.+++++..--.-    .+.. -..--..|..+.+++.+..+
T Consensus        19 s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~   98 (518)
T KOG1941|consen   19 SNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCE   98 (518)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555554432  00112234555666666777666654432111    1110 00012234445555555555


Q ss_pred             HHHHHHHHHHHHHC-CCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCCh
Q 009143          347 LDEASHFYGVLSKT-GVAP---DQISYKTIIQGLCIHGDIVKAREFLLSMLEK-----SVVPEPHIWNVIIDGYGRCGDL  417 (542)
Q Consensus       347 ~~~A~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~  417 (542)
                      +.+++.+-..-... |..|   ......++..++...+.++++++.|+...+-     +.......+..|...|.+..|+
T Consensus        99 f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~  178 (518)
T KOG1941|consen   99 FHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDY  178 (518)
T ss_pred             hhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhh
Confidence            55555544433221 2122   1123344556666677788888888877642     1122345678888888888888


Q ss_pred             HHHHHHHHHHHh----CCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh----CCCCCCH-HHHHHHHHHHHh
Q 009143          418 SNAFSIRDLMLS----FGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR----RGITPDI-ITYTELIKGHCA  488 (542)
Q Consensus       418 ~~A~~~~~~m~~----~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~----~g~~p~~-~~~~~li~~~~~  488 (542)
                      ++|.-...+..+    .++..-..-|..++.....-++-..|.+.+|.+..++..+    .|-.|-. .....+.+.|..
T Consensus       179 ~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~  258 (518)
T KOG1941|consen  179 EKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRS  258 (518)
T ss_pred             hHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHh
Confidence            888766655443    3333323334433322211135567888888888887765    3433322 445678889999


Q ss_pred             cCCHHHHHHHHHHHh
Q 009143          489 RGNMKEAEEVFAKIQ  503 (542)
Q Consensus       489 ~g~~~~A~~~~~~m~  503 (542)
                      .|+.+.|..-++...
T Consensus       259 ~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  259 RGDLERAFRRYEQAM  273 (518)
T ss_pred             cccHhHHHHHHHHHH
Confidence            999998887777644

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.12  E-value=0.5  Score=38.37  Aligned_cols=126  Identities=9%  Similarity=0.071  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCR  200 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  200 (542)
                      -..++..+.+.+.+.....+++.+...+. .+...++.++..|++.+. .+..+.+..      ..+......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            45678888888888899999988888763 577788888888887643 344344432      1233444557777878


Q ss_pred             cCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc-CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHH
Q 009143          201 VNELDKALHLFSTMANNGIRPNRVTHNILVHALCKK-GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYF  272 (542)
Q Consensus       201 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  272 (542)
                      .+.++++..++.++..         +...+..+... ++.+.|.+++.+.         .+...|..++..+.
T Consensus        82 ~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~---------~~~~lw~~~~~~~l  136 (140)
T smart00299       82 AKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ---------NNPELWAEVLKALL  136 (140)
T ss_pred             cCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC---------CCHHHHHHHHHHHH
Confidence            8888888888776632         12233333333 6777777776652         34556666665554

>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=96.05  E-value=0.023  Score=40.73  Aligned_cols=60  Identities=20%  Similarity=0.227  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCC-HHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQK----NI-QTD-IVAYNVLINGFCLNGDISSAFAYFCQM  322 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~  322 (542)
                      +++.+...|...|++++|+..|++..+.    |. .|+ ..++..+...+...|++++|++.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444444444444444321    10 011 233444444444455555554444443

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.05  E-value=0.24  Score=47.65  Aligned_cols=65  Identities=12%  Similarity=-0.039  Sum_probs=43.2

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDV---ITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +...++.+..+|.+.|++++|+..|++.++.++    .+.   .+|..+..+|...|+.++|+..+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~P----d~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNP----NPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC----CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456666677777777777777777777776665    333   34667777777777777777777776653

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.04  E-value=1.3  Score=41.52  Aligned_cols=107  Identities=17%  Similarity=0.196  Sum_probs=70.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhh
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAET  447 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~  447 (542)
                      +.+..+.-+...|+...|.++-++..    .|+...|...+.+++..++|++-.++... .     -.+.-|..++.+  
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-k-----KsPIGyepFv~~--  246 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-K-----KSPIGYEPFVEA--  246 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C-----CCCCChHHHHHH--
Confidence            44555666667787777777655542    26888888888888888888877665332 1     123556666665  


Q ss_pred             cccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 009143          448 RGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVF  499 (542)
Q Consensus       448 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  499 (542)
                         +.+.|...+|..+..++     +     +..-+..|.+.|++.+|.+.-
T Consensus       247 ---~~~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  247 ---CLKYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             ---HHHCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHH
Confidence               34557788888777661     1     245566778888888887654

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

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.01  E-value=1.5  Score=41.91  Aligned_cols=94  Identities=13%  Similarity=0.210  Sum_probs=69.7

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHH
Q 009143          137 ALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       137 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  216 (542)
                      -+++-+++.+.  +.|..+|..|+.-|...|..++..+++++|..--| --..+|...+.+-...+++.....+|.+...
T Consensus        28 ~lrLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp-~~~~aw~ly~s~ELA~~df~svE~lf~rCL~  104 (660)
T COG5107          28 ELRLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFP-IMEHAWRLYMSGELARKDFRSVESLFGRCLK  104 (660)
T ss_pred             HHHHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCc-cccHHHHHHhcchhhhhhHHHHHHHHHHHHh
Confidence            34555555553  45788999999999999999999999999976332 2356788888888888999999999999877


Q ss_pred             CCCCCChHHHHHHHHHHHh
Q 009143          217 NGIRPNRVTHNILVHALCK  235 (542)
Q Consensus       217 ~g~~p~~~~~~~l~~~~~~  235 (542)
                      ...  +...|...+.-..+
T Consensus       105 k~l--~ldLW~lYl~YIRr  121 (660)
T COG5107         105 KSL--NLDLWMLYLEYIRR  121 (660)
T ss_pred             hhc--cHhHHHHHHHHHHh
Confidence            543  45555555544333

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=1  Score=40.65  Aligned_cols=51  Identities=18%  Similarity=0.229  Sum_probs=25.3

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      ...|++.+|...|+......+    .+...-..++.+|...|+.+.|..++..+.
T Consensus       145 ~~~e~~~~a~~~~~~al~~~~----~~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAAP----ENSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             hhccchhhHHHHHHHHHHhCc----ccchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            344555555555555555443    333444445555555555555555555443

>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=95.95  E-value=0.26  Score=38.90  Aligned_cols=100  Identities=16%  Similarity=0.138  Sum_probs=72.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHH
Q 009143          400 EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITY  479 (542)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  479 (542)
                      |..++..++.++++.|+.+....+++..-  |+.++..              ...+.         --......|+..+.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~--------------~~~~~---------~~~~spl~Pt~~lL   55 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGK--------------KKEGD---------YPPSSPLYPTSRLL   55 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCc--------------cccCc---------cCCCCCCCCCHHHH
Confidence            45678888999999999888888876543  3333210              01111         11224568999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhH-cCCCCChhHHHHHHHHHHhc
Q 009143          480 TELIKGHCARGNMKEAEEVFAKIQT-LGLAIDHIPFRILKKRYRRM  524 (542)
Q Consensus       480 ~~li~~~~~~g~~~~A~~~~~~m~~-~g~~~~~~~~~~l~~~~~~~  524 (542)
                      .+++.+|+..|++..|.++++...+ .+++.+..+|..|+.-....
T Consensus        56 ~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   56 IAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999887 67888889999888765433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.93  E-value=0.37  Score=48.10  Aligned_cols=161  Identities=14%  Similarity=0.139  Sum_probs=90.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH------HHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHH
Q 009143          370 KTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPH------IWNVIIDGYGR----CGDLSNAFSIRDLMLSFGVSSNVFTF  439 (542)
Q Consensus       370 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~  439 (542)
                      ..++....-.||-+.+++.+.+..+.+-.-.+.      .|...+..++.    ..+.+.|.++++.+.+.  .|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            344444455566666666666554432111111      23333333322    34567777777777763  5666555


Q ss_pred             HHHHHHhhcccccccCChHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHH
Q 009143          440 NALILAETRGASCNLGHIHLALQLYDEMLRRGI---TPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRI  516 (542)
Q Consensus       440 ~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  516 (542)
                      ...-.-    .+...|++++|++.|++......   +.....+--+.+.+.-.++|++|.+.|.++.+..- -+..+|.-
T Consensus       270 l~~~gR----~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y  344 (468)
T PF10300_consen  270 LFFEGR----LERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAY  344 (468)
T ss_pred             HHHHHH----HHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHH
Confidence            443332    24556788888888876553110   11223445567777888888888888888887432 24444433


Q ss_pred             HHH-HHHhcCCh-------hHHHHHHHHH
Q 009143          517 LKK-RYRRMKES-------DKARDIHQKW  537 (542)
Q Consensus       517 l~~-~~~~~g~~-------~~A~~~~~~~  537 (542)
                      +.. ++...|+.       ++|.++++++
T Consensus       345 ~~a~c~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  345 LAAACLLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             HHHHHHHhhccchhhhhhHHHHHHHHHHH
Confidence            333 34566777       7777777776

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.92  E-value=0.18  Score=44.91  Aligned_cols=98  Identities=18%  Similarity=0.145  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc-CCCC-Chh
Q 009143          437 FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGIT--PDIITYTELIKGHCARGNMKEAEEVFAKIQTL-GLAI-DHI  512 (542)
Q Consensus       437 ~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~~-~~~  512 (542)
                      ..|+.-+.      +.+.|++..|..-|...++....  -....+-.|..++...|++++|..+|..+.+. +-.| -+.
T Consensus       143 ~~Y~~A~~------~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApd  216 (262)
T COG1729         143 KLYNAALD------LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPD  216 (262)
T ss_pred             HHHHHHHH------HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChH
Confidence            35777665      45678899999999998885211  12345556889999999999999999988873 2222 246


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          513 PFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       513 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      .+--|.....+.|+.++|...|++..++
T Consensus       217 allKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         217 ALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            6777888889999999999999988764

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.92  E-value=0.23  Score=46.66  Aligned_cols=61  Identities=16%  Similarity=0.050  Sum_probs=31.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +..+.-++.+.+++..|++.-.+++..++    .++.....-..++...|+++.|...|+.+.+.
T Consensus       260 ~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~----~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  260 HLNLAACYLKLKEYKEAIESCNKVLELDP----NNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             hhHHHHHHHhhhhHHHHHHHHHHHHhcCC----CchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            34444455555555555555555555444    45555555555555555555555555555544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.87  E-value=0.21  Score=48.10  Aligned_cols=66  Identities=14%  Similarity=-0.000  Sum_probs=53.5

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHHcCChhHHHHHHHHHhhC
Q 009143          115 ETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDV----LTHNYLVNELCKIGDLEKADHVIREMSEM  182 (542)
Q Consensus       115 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~  182 (542)
                      +.+...|+.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|++.+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345668888889999999999999999998875  3443    35888888899999999999988888774

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.84  E-value=0.3  Score=39.04  Aligned_cols=55  Identities=22%  Similarity=0.248  Sum_probs=23.2

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +.|++++|.+.|+.+..+.+ ..+-...+...|+.+|.+.+++++|...+++.++.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP-~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYP-FGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCC-CCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            44444444444444444433 11122233344444444444444444444444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.83  E-value=1.7  Score=43.49  Aligned_cols=90  Identities=16%  Similarity=0.095  Sum_probs=57.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHH--
Q 009143          400 EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDII--  477 (542)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~--  477 (542)
                      +..+...+..-+.+...+.-|-++|..|-+.         ..++..     +...+++.+|..+-++.-+.  .||..  
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVql-----Hve~~~W~eAFalAe~hPe~--~~dVy~p  809 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQL-----HVETQRWDEAFALAEKHPEF--KDDVYMP  809 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhh-----eeecccchHhHhhhhhCccc--cccccch
Confidence            4445555555566677777888888877542         122322     56778888888877766553  34432  


Q ss_pred             ---------HHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          478 ---------TYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       478 ---------~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                               -|...-.+|.++|+-+||..+++++...
T Consensus       810 yaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  810 YAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence                     1233456788889999999988887653

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.83  E-value=0.37  Score=47.43  Aligned_cols=133  Identities=14%  Similarity=0.082  Sum_probs=89.3

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHH
Q 009143          119 RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGY  198 (542)
Q Consensus       119 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  198 (542)
                      .-.+.++.-+-+.|-++.|+++-..         +.   .-.+...+.|+++.|.++.++      .++...|..|....
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHH
Confidence            3478888888888888888876433         21   234556778888888554432      24677888999988


Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      .+.|+++-|.+.|.+...         +..|+-.|.-.|+.+...++.+.....+.         ++....++.-.|+.+
T Consensus       358 L~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~---------~n~af~~~~~lgd~~  419 (443)
T PF04053_consen  358 LRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD---------INIAFQAALLLGDVE  419 (443)
T ss_dssp             HHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT----------HHHHHHHHHHHT-HH
T ss_pred             HHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC---------HHHHHHHHHHcCCHH
Confidence            899999888888877542         45566677788888888888777766654         455555666667777


Q ss_pred             HHHHHHHHH
Q 009143          279 QALALWNDM  287 (542)
Q Consensus       279 ~a~~~~~~~  287 (542)
                      +..+++.+-
T Consensus       420 ~cv~lL~~~  428 (443)
T PF04053_consen  420 ECVDLLIET  428 (443)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            777666543

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.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.79  E-value=1.6  Score=40.37  Aligned_cols=167  Identities=13%  Similarity=0.046  Sum_probs=84.6

Q ss_pred             hhHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          367 ISYKTIIQGLCIHGDI---VKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALI  443 (542)
Q Consensus       367 ~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  443 (542)
                      .++..++.+|...+..   ++|..+++.+...... .+..+-.-+..+.+.++.+++.+++.+|...-.. ....+...+
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHHHH
Confidence            3556666677666553   4555666666544332 3445555566666677888888888888774211 122333333


Q ss_pred             HHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHH--HHH---HHHHhcCC------HHHHHHHHHHHhH-cCCCCCh
Q 009143          444 LAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYT--ELI---KGHCARGN------MKEAEEVFAKIQT-LGLAIDH  511 (542)
Q Consensus       444 ~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~--~li---~~~~~~g~------~~~A~~~~~~m~~-~g~~~~~  511 (542)
                      ..+.   .........|...+..+....+.|....|.  .++   ....+.++      .+...++++...+ .+.+.+.
T Consensus       163 ~~i~---~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  163 HHIK---QLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHH---HHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            2211   011233455666666666543444443111  111   11112111      4444455554333 3333444


Q ss_pred             hHHHHH-------HHHHHhcCChhHHHHHHHHHh
Q 009143          512 IPFRIL-------KKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       512 ~~~~~l-------~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      .+-.++       +..+.+++++++|.++|+-.+
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            333222       233568899999999998654

It is also involved in sporulation [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.77  E-value=0.42  Score=37.17  Aligned_cols=91  Identities=21%  Similarity=0.134  Sum_probs=54.8

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHh
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDI---VAYNVLINGFCL  308 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~  308 (542)
                      +....|+++.|++.|.+.+..-+    ....+||.-..++--.|+.++|++=+++..+..-...-   .+|..-...|..
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P----~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl  127 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAP----ERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRL  127 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcc----cchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHH
Confidence            34566777777777777766555    56667777777777777777777766666654212221   123333344555


Q ss_pred             CCCHHHHHHHHHHHHHcC
Q 009143          309 NGDISSAFAYFCQMLKRG  326 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~~  326 (542)
                      .|+-+.|..-|+...+.|
T Consensus       128 ~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  128 LGNDDAARADFEAAAQLG  145 (175)
T ss_pred             hCchHHHHHhHHHHHHhC
Confidence            667777777676666655

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.73  E-value=0.23  Score=46.66  Aligned_cols=127  Identities=17%  Similarity=0.073  Sum_probs=97.3

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhCC-----CC---------CCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChH
Q 009143          159 LVNELCKIGDLEKADHVIREMSEMR-----PS---------PNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRV  224 (542)
Q Consensus       159 li~~~~~~g~~~~A~~~~~~~~~~~-----~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  224 (542)
                      -.+.|.+.|++..|...|++....-     ..         .-..+++.+..++.+.+++.+|++.-++....+ ++|..
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~K  292 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVK  292 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchh
Confidence            3456778888888888877754311     11         123467788889999999999999999998874 56788


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHC
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ-ALALWNDMFQK  290 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  290 (542)
                      ..-.-..++...|+++.|+..|+++++..|    .|-.+-+-|+.+--+.....+ ..++|..|...
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~~P----~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKLEP----SNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            888889999999999999999999999887    777777777777666655544 36777777653

>PRK11906 transcriptional regulator; Provisional

Probab=95.72  E-value=0.83  Score=44.21  Aligned_cols=145  Identities=11%  Similarity=0.009  Sum_probs=84.7

Q ss_pred             hhHHHHHHHHHH---hCCCCCCCCcHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          239 LGDAVKFLGEVL---ADDDGKATSDVITSTILMDSYFKN---------GDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       239 ~~~a~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      .+.|..+|.+.+   ..++    .....|..+..++...         .+..+|.++-++..+.+ +.|+.....+..+.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp----~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~  348 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQT----LKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLIT  348 (458)
T ss_pred             HHHHHHHHHHHhhcccCCc----ccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            456677777777   4333    3455555544444322         23456666777777766 66777777777777


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHhcCCHHH
Q 009143          307 CLNGDISSAFAYFCQMLKRGFLPD-VITYNTLLNCLCKQGKLDEASHFYGVLSKTG-VAPDQISYKTIIQGLCIHGDIVK  384 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~  384 (542)
                      .-.++++.|...|++....  .|| ..+|........-.|+.++|.+.+++..+.. ...........++.|+. ...++
T Consensus       349 ~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~  425 (458)
T PRK11906        349 GLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKN  425 (458)
T ss_pred             HhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-Cchhh
Confidence            7777777777788777765  343 4455555555566777777777777755532 11112233344445554 33466


Q ss_pred             HHHHHHH
Q 009143          385 AREFLLS  391 (542)
Q Consensus       385 A~~~~~~  391 (542)
                      |+.++-+
T Consensus       426 ~~~~~~~  432 (458)
T PRK11906        426 NIKLYYK  432 (458)
T ss_pred             hHHHHhh
Confidence            6666544

>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=95.67  E-value=0.23  Score=39.29  Aligned_cols=98  Identities=16%  Similarity=0.277  Sum_probs=61.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009143          330 DVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIID  409 (542)
Q Consensus       330 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  409 (542)
                      |..++..++.++++.|+.+....+++..-  |+.++...         ..+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            34566667777777777777666665432  22222100         0000         1112345678888888888


Q ss_pred             HHHhcCChHHHHHHHHHHHh-CCCCCCHHHHHHHHHHhh
Q 009143          410 GYGRCGDLSNAFSIRDLMLS-FGVSSNVFTFNALILAET  447 (542)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~~~~  447 (542)
                      +|+..|++..|+++.+...+ .+++-+..+|..++.-+.
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            88888888888888888766 566667777877777643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.62  E-value=0.4  Score=37.29  Aligned_cols=92  Identities=14%  Similarity=0.037  Sum_probs=51.1

Q ss_pred             HHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh---HHHHHHHHHHHhcCC
Q 009143          162 ELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR---VTHNILVHALCKKGL  238 (542)
Q Consensus       162 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~l~~~~~~~g~  238 (542)
                      ++...|+++.|++.|.+.+..-|+ ....||.-..++--.|+.++|++=+++..+..-.-+.   ..|..-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            345566777777777666655442 5566666666666666666666666666553211111   223333344455556


Q ss_pred             hhHHHHHHHHHHhCCC
Q 009143          239 LGDAVKFLGEVLADDD  254 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~  254 (542)
                      .+.|..-|+...+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            6666655555555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.58  E-value=0.32  Score=38.88  Aligned_cols=82  Identities=13%  Similarity=0.103  Sum_probs=60.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGT--VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGY  198 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  198 (542)
                      +..-.....+.|++++|++.|+.+..+-.  +-...+-..++.+|.+.|+++.|...+++..+..|..-..-|...+.++
T Consensus        13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            33344455688999999999999988721  1234556678899999999999999999999877764456666666666


Q ss_pred             HHcC
Q 009143          199 CRVN  202 (542)
Q Consensus       199 ~~~g  202 (542)
                      +...
T Consensus        93 ~~~~   96 (142)
T PF13512_consen   93 SYYE   96 (142)
T ss_pred             HHHH
Confidence            5543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.51  E-value=0.52  Score=46.40  Aligned_cols=58  Identities=16%  Similarity=0.069  Sum_probs=26.2

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .+...|..|.+...+.|+++-|.+.|.+..+         |..|+-.|.-.|+.+...++.+.....
T Consensus       345 ~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  345 DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            3444555555555555555555555544331         333444444445544444444444433

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.47  E-value=1  Score=45.03  Aligned_cols=163  Identities=18%  Similarity=0.171  Sum_probs=91.1

Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHCC-CCCCh-----HHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCCCcH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANNG-IRPNR-----VTHNILVHALCK----KGLLGDAVKFLGEVLADDDGKATSDV  261 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~  261 (542)
                      ..++....=.|+-+.+++.+.+..+.+ +.-..     -.|...+..++.    ....+.|.+++..+....|    ...
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP----~s~  267 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYP----NSA  267 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCC----CcH
Confidence            345555555666666666666654432 21111     122222222222    3456667777777777654    444


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQKN---IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      ...-.-.+.+...|++++|++.|++.....   .+.....+--+...+.-..+|++|.+.|..+.+.. ..+..+|.-+.
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~  346 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHH
Confidence            444555666677777777777777544311   02233445556667777788888888888887753 33344444333


Q ss_pred             H-HHHhcCCH-------HHHHHHHHHHHH
Q 009143          339 N-CLCKQGKL-------DEASHFYGVLSK  359 (542)
Q Consensus       339 ~-~~~~~g~~-------~~A~~~~~~~~~  359 (542)
                      . ++...|+.       ++|.++|.++..
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            3 33445666       777777776643

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.35  E-value=1.3  Score=45.75  Aligned_cols=214  Identities=14%  Similarity=0.147  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      +...-+..+.+...++.|..+-+.-.....    .-........+-+.+.|++++|...|-+-...- .|.     .+|.
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d----~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l-e~s-----~Vi~  405 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDED----TLAEIHRKYGDYLYGKGDFDEATDQYIETIGFL-EPS-----EVIK  405 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHH----HHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC-ChH-----HHHH
Confidence            345566777777788888777654321111    122334445556677888998888777665321 222     2455


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH
Q 009143          305 GFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVK  384 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  384 (542)
                      -|.....+.+-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            566777777888888888888855 55566678889999998888777665443 2211  1113445556666666777


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHH
Q 009143          385 AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLY  464 (542)
Q Consensus       385 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~  464 (542)
                      |..+-.+...     +......   .+...+++++|++.++.+.-...-+....|...+--         ..+++-.+++
T Consensus       482 a~~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~slp~~e~l~~l~kyGk~Ll~---------h~P~~t~~il  544 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISSLPISELLRTLNKYGKILLE---------HDPEETMKIL  544 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhcCCHHHHHHHHHHHHHHHHh---------hChHHHHHHH
Confidence            7666555432     2333333   345568888988888765432223334444444422         4566666666


Q ss_pred             HHHHh
Q 009143          465 DEMLR  469 (542)
Q Consensus       465 ~~~~~  469 (542)
                      -+...
T Consensus       545 i~~~t  549 (933)
T KOG2114|consen  545 IELIT  549 (933)
T ss_pred             HHHHh
Confidence            55554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.29  E-value=0.74  Score=42.13  Aligned_cols=116  Identities=11%  Similarity=0.009  Sum_probs=57.2

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHH----HHHHHHHHhcCChh
Q 009143          165 KIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTH----NILVHALCKKGLLG  240 (542)
Q Consensus       165 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~----~~l~~~~~~~g~~~  240 (542)
                      ..|+..+|...++++++..| .|...++-.=.+|.-.|+.+.-...++++... ..|+...|    ....-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d~P-tDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYP-TDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhCc-hhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            34555555555555555443 25555555555555555555555555555432 11222111    22223333455555


Q ss_pred             HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          241 DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWND  286 (542)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  286 (542)
                      +|++.-++..+.++    .|..+..++...+--.|+..++.+...+
T Consensus       193 dAEk~A~ralqiN~----~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  193 DAEKQADRALQINR----FDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             hHHHHHHhhccCCC----cchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            55555555555554    5555555555555555555555554433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.28  E-value=2  Score=38.14  Aligned_cols=58  Identities=16%  Similarity=0.051  Sum_probs=35.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          372 IIQGLCIHGDIVKAREFLLSMLEKSVV--PEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       372 li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      +.+.|.+.|.+..|..-++.|++.-..  -....+-.+..+|.+.|-.++|.+.-+-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            445677777777777777777765211  1122344556667777777777666555544

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.26  E-value=4.1  Score=41.72  Aligned_cols=313  Identities=11%  Similarity=0.039  Sum_probs=165.8

Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCh--hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHH
Q 009143          193 AFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLL--GDAVKFLGEVLADDDGKATSDVITSTILMDS  270 (542)
Q Consensus       193 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~--~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~  270 (542)
                      .+|.-+...+.+..|+++-..+...-.. ....|......+.+..+.  +++.+...+-+....    .....|..+..-
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~----~~~iSy~~iA~~  516 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL----TPGISYAAIARR  516 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcccC----CCceeHHHHHHH
Confidence            3566677778888888887766432111 156666677666665322  223333333222211    344567777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-----------CCCCHHHHH
Q 009143          271 YFKNGDKFQALALWNDMFQKNIQ----TDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG-----------FLPDVITYN  335 (542)
Q Consensus       271 ~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-----------~~p~~~~~~  335 (542)
                      ...+|+.+-|..+++.=...+..    .+..-+..-+.-..+.|+.+-...++..+..+-           .+.....|.
T Consensus       517 Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~  596 (829)
T KOG2280|consen  517 AYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYR  596 (829)
T ss_pred             HHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHH
Confidence            78888888888877643322100    111223344455556666666666655554320           011111122


Q ss_pred             HHHH--------HHHhcCCHHHHHHHHH--HHHHC-CCCCChhhHHHHHHHHHhcCCH---HHHH-------HHHHHHHh
Q 009143          336 TLLN--------CLCKQGKLDEASHFYG--VLSKT-GVAPDQISYKTIIQGLCIHGDI---VKAR-------EFLLSMLE  394 (542)
Q Consensus       336 ~li~--------~~~~~g~~~~A~~~~~--~~~~~-~~~~~~~~~~~li~~~~~~g~~---~~A~-------~~~~~~~~  394 (542)
                      .+++        .+.+.++-.++..-|.  ..... .+.+-..........+.+....   ++|.       ++.+.+..
T Consensus       597 ~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~  676 (829)
T KOG2280|consen  597 QFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLED  676 (829)
T ss_pred             HHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            2221        0111222122221111  10000 0111112223333444443321   1111       11112211


Q ss_pred             -CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCC
Q 009143          395 -KSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGIT  473 (542)
Q Consensus       395 -~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~  473 (542)
                       .+..-...+.+--+.-+...|+..+|.++-.+.+    -||-..|..-+.+     +...+++++-+++-+...     
T Consensus       677 q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~a-----La~~~kweeLekfAkskk-----  742 (829)
T KOG2280|consen  677 QFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTA-----LADIKKWEELEKFAKSKK-----  742 (829)
T ss_pred             HhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHH-----HHhhhhHHHHHHHHhccC-----
Confidence             1222233345556666778889999988877665    5787777777766     667788887777665544     


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHH
Q 009143          474 PDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIH  534 (542)
Q Consensus       474 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~  534 (542)
                       .+.-|.-++.+|.+.|+.+||.+++.+....   +      -...+|.+.|++.+|.++-
T Consensus       743 -sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l---~------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  743 -SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL---Q------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             -CCCCchhHHHHHHhcccHHHHhhhhhccCCh---H------HHHHHHHHhccHHHHHHHH
Confidence             2455777889999999999999988654321   1      4677888889988887654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.22  E-value=2  Score=37.70  Aligned_cols=55  Identities=13%  Similarity=0.150  Sum_probs=29.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHcC---CCCChhHHHHHHHHHHhcCChhHHHHHH
Q 009143          479 YTELIKGHCARGNMKEAEEVFAKIQTLG---LAIDHIPFRILKKRYRRMKESDKARDIH  534 (542)
Q Consensus       479 ~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~~~~~~~~~l~~~~~~~g~~~~A~~~~  534 (542)
                      |-..|-.+....++..|.+.++.-.+.+   -.-+..+...|+.+| ..|+.+++.+++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            4444555555666677776666643321   122445555666555 356666655544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.21  E-value=2  Score=37.87  Aligned_cols=154  Identities=16%  Similarity=0.067  Sum_probs=69.9

Q ss_pred             CCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 009143          275 GDKFQALALWNDMFQKNIQ-TDIVAYNVLINGFCLNGDISSAFAYFCQMLKR-GFLPDVITYNTLLNCLCKQGKLDEASH  352 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~  352 (542)
                      +....+...+......... .....+......+...+.+..+...+...... ........+......+...++...+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4444444555444443211 02345555555556666666666655555431 123334444445555555555556665


Q ss_pred             HHHHHHHCCCCCChhhHHHHHH-HHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          353 FYGVLSKTGVAPDQISYKTIIQ-GLCIHGDIVKAREFLLSMLEKSV--VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       353 ~~~~~~~~~~~~~~~~~~~li~-~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      .+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+.....
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            555555432221 111111222 44555555555555555543211  01222233333334445555555555555544

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.12  E-value=2.7  Score=38.81  Aligned_cols=191  Identities=14%  Similarity=0.045  Sum_probs=99.8

Q ss_pred             CHHHHHHHHHHHHHc--------CCCCCH-----HHHHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCChhhHHHHHH
Q 009143          311 DISSAFAYFCQMLKR--------GFLPDV-----ITYNTLLNCLCKQGKLD---EASHFYGVLSKTGVAPDQISYKTIIQ  374 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~--------~~~p~~-----~~~~~li~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~~li~  374 (542)
                      +++.|...+++..+.        ...|+.     .++..++.+|...+..+   +|..+++.+.... +-.+.++..-++
T Consensus        51 ~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~  129 (278)
T PF08631_consen   51 KYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLE  129 (278)
T ss_pred             ChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHH
Confidence            666666666654432        122332     34566777777766544   4555666664432 223455556666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCChHHHHHHHHHHHhCCCCCCHHHH--HHHHHHhhccc
Q 009143          375 GLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR--CGDLSNAFSIRDLMLSFGVSSNVFTF--NALILAETRGA  450 (542)
Q Consensus       375 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~~~--~~ll~~~~~~~  450 (542)
                      .+.+.++.+++.+.+.+|+..-.. ....+..++..+..  ......|...+..+....+.|....+  ..++.......
T Consensus       130 il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~  208 (278)
T PF08631_consen  130 ILLKSFDEEEYEEILMRMIRSVDH-SESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTT  208 (278)
T ss_pred             HHhccCChhHHHHHHHHHHHhccc-ccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHc
Confidence            676778888888888888875321 23344444444421  23345666666666654444444211  11111100000


Q ss_pred             ----ccccCChHHHHHHHHHHHh-CCCCCCHHH---HHHHHH----HHHhcCCHHHHHHHHHHHh
Q 009143          451 ----SCNLGHIHLALQLYDEMLR-RGITPDIIT---YTELIK----GHCARGNMKEAEEVFAKIQ  503 (542)
Q Consensus       451 ----~~~~g~~~~A~~~~~~~~~-~g~~p~~~~---~~~li~----~~~~~g~~~~A~~~~~~m~  503 (542)
                          ....+.++....++....+ .+.+.+..+   ..++++    .+.+.++|++|.+.++-..
T Consensus       209 ~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  209 QSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             CCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence                0111225555566664443 222333333   333433    4567999999999998543

It is also involved in sporulation [].

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.99  E-value=0.8  Score=41.93  Aligned_cols=152  Identities=14%  Similarity=0.109  Sum_probs=84.5

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHhcCChH
Q 009143          343 KQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIW----NVIIDGYGRCGDLS  418 (542)
Q Consensus       343 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----~~li~~~~~~g~~~  418 (542)
                      ..|+..+|...++++.+. .+.|...++..=.+|...|+.+.-...++++... ..+|...|    ..+.-++..+|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            456666776677776664 4556666666667777777777777777776643 12333232    23334455677777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHH
Q 009143          419 NAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRR---GITPDIITYTELIKGHCARGNMKEA  495 (542)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~---g~~p~~~~~~~li~~~~~~g~~~~A  495 (542)
                      +|.+.-++..+.+ +.|...-.+..+.     +...|+..++.++..+-...   +--.-...|-...-.+...+.++.|
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHV-----lem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~a  266 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHV-----LEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKA  266 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHH-----HHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHH
Confidence            7777777766632 2233333333333     33457777777776655431   0000111222233344456777777


Q ss_pred             HHHHHHH
Q 009143          496 EEVFAKI  502 (542)
Q Consensus       496 ~~~~~~m  502 (542)
                      .++|+.=
T Consensus       267 leIyD~e  273 (491)
T KOG2610|consen  267 LEIYDRE  273 (491)
T ss_pred             HHHHHHH
Confidence            7777653

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.88  E-value=0.25  Score=43.86  Aligned_cols=93  Identities=12%  Similarity=0.202  Sum_probs=56.3

Q ss_pred             CCHHHHHHHHHHHHh-----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccC-----------ChHHHHH
Q 009143          399 PEPHIWNVIIDGYGR-----CGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLG-----------HIHLALQ  462 (542)
Q Consensus       399 ~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g-----------~~~~A~~  462 (542)
                      -|..+|-+.+..+..     .+..+=....++.|.+.|+..|..+|+.|+..+-..-+.-.+           +-+=+++
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            467777777777654     355666777788888899999999999988863221111111           1122445


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 009143          463 LYDEMLRRGITPDIITYTELIKGHCARGN  491 (542)
Q Consensus       463 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~  491 (542)
                      ++++|...|+.||..+-..|+.++.+.|-
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            55555555555555555555555555443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.88  E-value=1.9  Score=35.66  Aligned_cols=123  Identities=19%  Similarity=0.159  Sum_probs=52.4

Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHH---HHHHHHHHHHhc
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNR-VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVI---TSTILMDSYFKN  274 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~  274 (542)
                      .+.++.++|+.-|..+.+.|...-+ -............|+...|...|+++-...+ .  |...   ....-.-.+...
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~-~--P~~~rd~ARlraa~lLvD~  145 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTS-I--PQIGRDLARLRAAYLLVDN  145 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCC-C--cchhhHHHHHHHHHHHhcc
Confidence            3455555555555555555432111 1112222333445555555555555544332 1  1111   111111223344


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          275 GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      |.+++.....+.+...+-+.-...-..|.-+-.+.|++..|.+.|.++..
T Consensus       146 gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         146 GSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             ccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            55555554444444333233333334444444555555555555555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.87  E-value=5.4  Score=41.01  Aligned_cols=280  Identities=15%  Similarity=0.083  Sum_probs=156.3

Q ss_pred             hhHHHHHHHHHHhCCCCCCCCcHHHHHHHH--HH-HHhcCCHHHHHHHHHHHHH-------CCCCCCHHHHHHHHHHHHh
Q 009143          239 LGDAVKFLGEVLADDDGKATSDVITSTILM--DS-YFKNGDKFQALALWNDMFQ-------KNIQTDIVAYNVLINGFCL  308 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~~li~~~~~  308 (542)
                      ...+.++++...+.+.    ........++  .+ +....|.+.|...++.+..       .+   .+....-+..+|.+
T Consensus       228 ~~~a~~~~~~~a~~g~----~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~  300 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH----SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQ  300 (552)
T ss_pred             hhHHHHHHHHHHhhcc----hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhc
Confidence            4567888888877665    2222222222  22 4456788899998888876       44   33355566667766


Q ss_pred             CC-----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH----h
Q 009143          309 NG-----DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK-QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC----I  378 (542)
Q Consensus       309 ~~-----~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~----~  378 (542)
                      ..     +.+.|+.++.+..+.| .|+...+...+.-... ..+...|.++|....+.|..   ..+-.+..+|.    .
T Consensus       301 g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv  376 (552)
T KOG1550|consen  301 GLGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGV  376 (552)
T ss_pred             CCCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCc
Confidence            43     6677999999988887 4455444333332222 24578999999998888742   23333333332    2


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccccc--ccCC
Q 009143          379 HGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASC--NLGH  456 (542)
Q Consensus       379 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~--~~g~  456 (542)
                      ..+...|..++++.-+++. |....-...+..+.. ++++.+.-.+..+.+.|..--...-..++.........  ...+
T Consensus       377 ~r~~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~  454 (552)
T KOG1550|consen  377 ERNLELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVIST  454 (552)
T ss_pred             CCCHHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccccc
Confidence            3468899999999988873 232222223333444 77777777777766654332111111111110000011  1235


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHH----hcCChh
Q 009143          457 IHLALQLYDEMLRRGITPDIITYTELIKGHCAR----GNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR----RMKESD  528 (542)
Q Consensus       457 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~----~~g~~~  528 (542)
                      .+.+...+.+....|   +......+.+.|...    .+++.|...+......+    ....-.+...+-    ... +.
T Consensus       455 ~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~----~~~~~nlg~~~e~g~g~~~-~~  526 (552)
T KOG1550|consen  455 LERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG----AQALFNLGYMHEHGEGIKV-LH  526 (552)
T ss_pred             hhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh----hHHHhhhhhHHhcCcCcch-hH
Confidence            677777777776654   445555666655543    34667777776666553    222222333322    122 56


Q ss_pred             HHHHHHHHHhh
Q 009143          529 KARDIHQKWLL  539 (542)
Q Consensus       529 ~A~~~~~~~l~  539 (542)
                      .|.++|++..+
T Consensus       527 ~a~~~~~~~~~  537 (552)
T KOG1550|consen  527 LAKRYYDQASE  537 (552)
T ss_pred             HHHHHHHHHHh
Confidence            77777776654

>PRK11906 transcriptional regulator; Provisional

Probab=94.86  E-value=3.2  Score=40.35  Aligned_cols=79  Identities=15%  Similarity=-0.026  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 009143          241 DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFC  320 (542)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  320 (542)
                      +|.++-+..++.++    .|..+...+..+..-.++++.|..+|++....+ +....+|......+.-.|+.++|.+.++
T Consensus       322 ~a~~~A~rAveld~----~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        322 KALELLDYVSDITT----VDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHhcCC----CCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34444444444444    444444444444444444555555555544443 2233344444444444455555555555


Q ss_pred             HHHH
Q 009143          321 QMLK  324 (542)
Q Consensus       321 ~~~~  324 (542)
                      +..+
T Consensus       397 ~alr  400 (458)
T PRK11906        397 KSLQ  400 (458)
T ss_pred             HHhc
Confidence            5443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.76  E-value=0.12  Score=32.09  Aligned_cols=29  Identities=28%  Similarity=0.249  Sum_probs=14.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  254 (542)
                      +..+...|...|++++|+++++++++..+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            34444445555555555555555555444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.66  E-value=0.11  Score=32.19  Aligned_cols=28  Identities=14%  Similarity=0.310  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCC
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMR  183 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~  183 (542)
                      +..+...|.+.|++++|+++|+++.+..
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3444444444555555555555444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.65  E-value=3.8  Score=40.02  Aligned_cols=56  Identities=14%  Similarity=0.138  Sum_probs=26.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 009143          267 LMDSYFKNGDKFQALALWNDMFQKNIQ-TDIVAYNVLINGFCLNGDISSAFAYFCQM  322 (542)
Q Consensus       267 l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~  322 (542)
                      +..+.-+.|+.++|.+.+++|.+.... ........|+.++...+.+.++..++.+-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            444444555555555555555433211 12224444555555555555555555544

The molecular function of this protein is uncertain.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.55  E-value=0.079  Score=31.11  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHh
Q 009143          513 PFRILKKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       513 ~~~~l~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      +|..|...|.+.|++++|+++|+++|
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            36677888888888888888888854

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.49  E-value=1.2  Score=41.32  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=24.5

Q ss_pred             HHhcCChHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHHcCChhHHH
Q 009143          128 LCLGGKIGTALWLRRKMIQK--GTVPDVLTHNYLVNELCKIGDLEKAD  173 (542)
Q Consensus       128 ~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~A~  173 (542)
                      +..+.+.++|+..+..-+.+  .......++..+..+.+..|.++++.
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL   63 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEML   63 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHH
Confidence            44566677777666665543  11112334555556666666555543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.46  E-value=9  Score=41.68  Aligned_cols=45  Identities=16%  Similarity=0.213  Sum_probs=26.3

Q ss_pred             hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC--CHHHHHHHHHHHHH
Q 009143          240 GDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG--DKFQALALWNDMFQ  289 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~  289 (542)
                      +...+.+...+.+..    |+ .....++.+|.+.+  .+++++....+...
T Consensus       774 ~~vc~~vr~~l~~~~----~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  774 NSVCDAVRNALERRA----PD-KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             HHHHHHHHHHHhhcC----cc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            344444444444443    44 55566777777776  66677666666653

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.38  E-value=3.3  Score=40.42  Aligned_cols=57  Identities=21%  Similarity=0.209  Sum_probs=26.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          336 TLLNCLCKQGKLDEASHFYGVLSKTGVA-PDQISYKTIIQGLCIHGDIVKAREFLLSM  392 (542)
Q Consensus       336 ~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~  392 (542)
                      .+..++-+.|+.++|.+.+.+|.+.... ....+...|+.++...+.+.++..++.+-
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            3444444555555555555555443211 11224444555555555555555555554

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.38  E-value=0.33  Score=43.21  Aligned_cols=107  Identities=17%  Similarity=0.172  Sum_probs=69.9

Q ss_pred             CCCChhhHHHHHHHHHh-----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH
Q 009143          114 LETDYRRHVAVIRDLCL-----GGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNC  188 (542)
Q Consensus       114 ~~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  188 (542)
                      -+.|-.+|.+.+..+..     .+.++--...++.|.+.|+.-|..+|+.|++.+-+..-.                |..
T Consensus        63 ~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P~n  126 (406)
T KOG3941|consen   63 EKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------PQN  126 (406)
T ss_pred             ccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------cHH
Confidence            34455566666666653     355666667788888889998999998888876543211                211


Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCh
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLL  239 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  239 (542)
                      .. ....--|-  .+-+-+++++++|...|+.||..+-..|++++.+.+-.
T Consensus       127 vf-Q~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  127 VF-QKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HH-HHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            11 11111111  22345788899999999999999999999998877653

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.32  E-value=2.6  Score=34.87  Aligned_cols=135  Identities=13%  Similarity=0.105  Sum_probs=87.7

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHH
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIV-AYNV  301 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~  301 (542)
                      ..+|...++ +.+.+..++|+.-|.++.+.+.+.  -.+.............|+...|...|+++-.....|-.. -...
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~--YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~AR  135 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGS--YPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLAR  135 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCc--chHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHH
Confidence            344554444 457788889999999998887633  333444445566778889999999999887653233222 1111


Q ss_pred             H--HHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          302 L--INGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       302 l--i~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      |  .-.+...|.+++.....+.+...+-+.-...-..|.-+-.+.|++..|.+.|..+...
T Consensus       136 lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         136 LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            1  2235567888887777776665543334445566666777888888888888877664

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.29  E-value=2.2  Score=36.12  Aligned_cols=54  Identities=13%  Similarity=0.049  Sum_probs=23.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          484 KGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       484 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      +.....|.+++|..+++.....++  .......-.+.+...|+.++|+.-|++.++
T Consensus       134 rvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~  187 (207)
T COG2976         134 RVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALE  187 (207)
T ss_pred             HHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHH
Confidence            334445555555555444433322  112222333444555555555555555444

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=94.24  E-value=8.5  Score=40.53  Aligned_cols=230  Identities=12%  Similarity=0.038  Sum_probs=125.3

Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHH-HHHhcCCHHHHHHHHHHHHHC----CCCCChhhHHHH
Q 009143          305 GFCLNGDISSAFAYFCQMLKRGFLPDV-------ITYNTLLN-CLCKQGKLDEASHFYGVLSKT----GVAPDQISYKTI  372 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~~~~p~~-------~~~~~li~-~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~l  372 (542)
                      ......++++|..++.++...-..|+.       ..++.+-. .....|+++.|.++.+.....    -..+....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            445578899999999887754222221       12333322 234578899999988877654    123345566777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHH--HHHHhcCCh--HHHHHHHHHHHhC--CCCC----CHHHH
Q 009143          373 IQGLCIHGDIVKAREFLLSMLEKSVVPEPH---IWNVII--DGYGRCGDL--SNAFSIRDLMLSF--GVSS----NVFTF  439 (542)
Q Consensus       373 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~~~li--~~~~~~g~~--~~A~~~~~~m~~~--~~~p----~~~~~  439 (542)
                      ..+..-.|++++|..+..+..+..-.-+..   .|..+.  ..+...|+.  .+....|......  +-.|    -..++
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            777778899999998888776542222333   233332  234566733  3333344443321  1111    22334


Q ss_pred             HHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHhHcCC----CCChhH
Q 009143          440 NALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITY--TELIKGHCARGNMKEAEEVFAKIQTLGL----AIDHIP  513 (542)
Q Consensus       440 ~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~----~~~~~~  513 (542)
                      ..++.++    +...+...++..-++--......|-...+  ..|+......|++++|...++++.....    .++...
T Consensus       584 ~~ll~~~----~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a  659 (894)
T COG2909         584 AQLLRAW----LRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLA  659 (894)
T ss_pred             HHHHHHH----HHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHH
Confidence            4444432    11122223333322222222222222222  3678888899999999999999887422    223222


Q ss_pred             HHHHHHH--HHhcCChhHHHHHHHHHh
Q 009143          514 FRILKKR--YRRMKESDKARDIHQKWL  538 (542)
Q Consensus       514 ~~~l~~~--~~~~g~~~~A~~~~~~~l  538 (542)
                      -...+..  ...+|+.++|.....+-.
T Consensus       660 ~~~~v~~~lwl~qg~~~~a~~~l~~s~  686 (894)
T COG2909         660 AAYKVKLILWLAQGDKELAAEWLLKSG  686 (894)
T ss_pred             HHHHhhHHHhcccCCHHHHHHHHHhcc
Confidence            2223322  346788888887777643

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.18  E-value=3.7  Score=36.13  Aligned_cols=95  Identities=21%  Similarity=0.094  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHh--CCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLA--DDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNV  301 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  301 (542)
                      ..+......+...+.+..+...+.....  ...    .....+......+...++...+.+.+.........+ ......
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  134 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLP----NLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEAL  134 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhcc----chHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHH
Confidence            3444444445555555555555544443  111    334444444455555555555555555555432111 111111


Q ss_pred             HHH-HHHhCCCHHHHHHHHHHHH
Q 009143          302 LIN-GFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       302 li~-~~~~~~~~~~A~~~~~~~~  323 (542)
                      ... .+...|+++.|...+.+..
T Consensus       135 ~~~~~~~~~~~~~~a~~~~~~~~  157 (291)
T COG0457         135 LALGALYELGDYEEALELYEKAL  157 (291)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            112 4455555555555555553

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.08  E-value=3.8  Score=35.97  Aligned_cols=206  Identities=14%  Similarity=0.031  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      .|.....+|....++++|...+.+..+-..    .+...       +-....++.|.-+.+++...  +--+..|+.-..
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~yE----nnrsl-------fhAAKayEqaamLake~~kl--sEvvdl~eKAs~   99 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKGYE----NNRSL-------FHAAKAYEQAAMLAKELSKL--SEVVDLYEKASE   99 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHHH----hcccH-------HHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHH
Confidence            344555666677777777777766654221    11111       11122334444444444432  112233444555


Q ss_pred             HHHhCCCHHHHHHHHHHHHHc--CCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 009143          305 GFCLNGDISSAFAYFCQMLKR--GFLPDV--ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG  380 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~--~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  380 (542)
                      .|...|..+.|-..+++.-+.  ++.|+.  ..|..-+......++...|..+               +..+-..+.+..
T Consensus       100 lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el---------------~gk~sr~lVrl~  164 (308)
T KOG1585|consen  100 LYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFEL---------------YGKCSRVLVRLE  164 (308)
T ss_pred             HHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHH---------------HHHhhhHhhhhH
Confidence            666666666665555544321  122321  1222222222222222222222               233334455555


Q ss_pred             CHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhCC---CCCCHHHHHHHHHHhhccccc
Q 009143          381 DIVKAREFLLSMLEK----SVVPEP-HIWNVIIDGYGRCGDLSNAFSIRDLMLSFG---VSSNVFTFNALILAETRGASC  452 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~  452 (542)
                      .+++|-..+.+-...    .-.++. ..|-..|-.|.-..++..|.+.++.--+.+   -.-+..+...||.+|      
T Consensus       165 kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay------  238 (308)
T KOG1585|consen  165 KFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY------  238 (308)
T ss_pred             HhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh------
Confidence            555554444332211    111111 234455555666678888888887754422   123446666777653      


Q ss_pred             ccCChHHHHHHH
Q 009143          453 NLGHIHLALQLY  464 (542)
Q Consensus       453 ~~g~~~~A~~~~  464 (542)
                      ..|+.+++.+++
T Consensus       239 d~gD~E~~~kvl  250 (308)
T KOG1585|consen  239 DEGDIEEIKKVL  250 (308)
T ss_pred             ccCCHHHHHHHH
Confidence            457777665554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.06  E-value=2.7  Score=34.06  Aligned_cols=84  Identities=10%  Similarity=0.023  Sum_probs=39.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG  345 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  345 (542)
                      .++..+.+.+........++.+...+ ..+....+.++..|++.+ ..+.++.+..      ..+......+++.|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            34444444455555555555555544 244555555555555442 2223333331      122333344555555555


Q ss_pred             CHHHHHHHHHHH
Q 009143          346 KLDEASHFYGVL  357 (542)
Q Consensus       346 ~~~~A~~~~~~~  357 (542)
                      .++++..++..+
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.97  E-value=8.6  Score=39.58  Aligned_cols=246  Identities=15%  Similarity=0.075  Sum_probs=137.8

Q ss_pred             hhHHHHHHHHHhhCCCCCCHHhHHHHHHH-----HHHcCChhhHHHHHHHHHH-------CCCCCChHHHHHHHHHHHhc
Q 009143          169 LEKADHVIREMSEMRPSPNCATYNAFITG-----YCRVNELDKALHLFSTMAN-------NGIRPNRVTHNILVHALCKK  236 (542)
Q Consensus       169 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~-----~~~~g~~~~A~~~~~~m~~-------~g~~p~~~~~~~l~~~~~~~  236 (542)
                      ...|.+.++...+.|.   ......+..+     +....+.+.|+.+|+.+.+       .|   +......+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            4577888888776553   2222222222     3455788899999988866       44   334556666777664


Q ss_pred             C-----ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--h
Q 009143          237 G-----LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK-NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC--L  308 (542)
Q Consensus       237 g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~  308 (542)
                      .     +.+.|..++....+.+.    ++.......+..... ..+...|.++|....+.|. +...-+-.++....  .
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~----~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv  376 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN----PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGV  376 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC----chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCc
Confidence            3     56678889988888776    555544333333222 3467889999999888873 22222222222111  2


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH-HHH---Hh----cC
Q 009143          309 NGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTII-QGL---CI----HG  380 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li-~~~---~~----~g  380 (542)
                      ..+...|..++.+..+.| .|...--...+..+.. ++++.+.-.+..+...|.+. ..+-...+ ...   ..    ..
T Consensus       377 ~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~-~q~~a~~l~~~~~~~~~~~~~~~  453 (552)
T KOG1550|consen  377 ERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEV-AQSNAAYLLDQSEEDLFSRGVIS  453 (552)
T ss_pred             CCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhH-HhhHHHHHHHhcccccccccccc
Confidence            347788899999888887 3332222333334444 77777777776666655332 11111111 111   00    12


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CChHHHHHHHHHHHhCC
Q 009143          381 DIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC----GDLSNAFSIRDLMLSFG  431 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~~  431 (542)
                      +.+.+...+.+....|   +......+.+.|...    .+++.|...+......+
T Consensus       454 ~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~  505 (552)
T KOG1550|consen  454 TLERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG  505 (552)
T ss_pred             chhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh
Confidence            4455666666655543   445555555554432    34666666666665543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=93.96  E-value=9.3  Score=39.96  Aligned_cols=127  Identities=13%  Similarity=0.135  Sum_probs=72.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCC----CCCChhhHHHH-HHHHHHcCChhHHHHHHHHHhhCC---CCCCHHhHHH
Q 009143          122 VAVIRDLCLGGKIGTALWLRRKMIQKG----TVPDVLTHNYL-VNELCKIGDLEKADHVIREMSEMR---PSPNCATYNA  193 (542)
Q Consensus       122 ~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~  193 (542)
                      ..++..+.+.+... |...+++.++.-    ..+-...+..+ +..+...+++..|.+.++.+...-   ..|...++-.
T Consensus       104 ~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~  182 (608)
T PF10345_consen  104 FLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLAS  182 (608)
T ss_pred             HHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHH
Confidence            34556666666555 888888877641    11222333333 333334478998988888876532   2344555555


Q ss_pred             HHHHHHH--cCChhhHHHHHHHHHHCCC---------CCChHHHHHHHHHHH--hcCChhHHHHHHHHH
Q 009143          194 FITGYCR--VNELDKALHLFSTMANNGI---------RPNRVTHNILVHALC--KKGLLGDAVKFLGEV  249 (542)
Q Consensus       194 li~~~~~--~g~~~~A~~~~~~m~~~g~---------~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~  249 (542)
                      ++.+...  .+..+++.+.++++.....         .|-..+|..+++.++  ..|+++.+...++++
T Consensus       183 l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  183 LSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555443  4556777777777633211         234556666666555  566666666555544

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.85  E-value=2.6  Score=33.12  Aligned_cols=62  Identities=16%  Similarity=0.244  Sum_probs=28.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF  327 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  327 (542)
                      ...++...+.|+-+.-.+++.++.+.+ .+++...-.+..+|.+.|+..++-+++.++-+.|+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            333444455555555555555554322 45555555555555555555555555555555553

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.78  E-value=5.7  Score=36.91  Aligned_cols=135  Identities=19%  Similarity=0.224  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCC--
Q 009143          348 DEASHFYGVLSKTGVAPDQISYKTIIQGLCI--HG----DIVKAREFLLSMLEKSV---VPEPHIWNVIIDGYGRCGD--  416 (542)
Q Consensus       348 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~--~g----~~~~A~~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~--  416 (542)
                      ++...+++.+.+.|+.-+..+|-+..-....  ..    ...+|..+++.|++..+   .++-.++..++..  ..++  
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            3456677888888887766555443322222  12    35678888888887653   2344555555444  3333  


Q ss_pred             --hHHHHHHHHHHHhCCCCCCHH-HHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009143          417 --LSNAFSIRDLMLSFGVSSNVF-TFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGH  486 (542)
Q Consensus       417 --~~~A~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  486 (542)
                        .+.+..+|+.+.+.|+..+.. .+.+-+-++... - ......++.++++.+.+.|+++....|..++-..
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~-~-~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEG-D-DQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccc-c-chHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence              355667788888888776542 333333332111 1 1111557788888888888888887776655433

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.76  E-value=2.7  Score=33.03  Aligned_cols=54  Identities=19%  Similarity=0.251  Sum_probs=23.3

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCC
Q 009143          453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGL  507 (542)
Q Consensus       453 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  507 (542)
                      ..|+-+.-.++..++.+.+ .+++...-.+..+|.+.|+..++.+++.++.+.|+
T Consensus        98 ~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   98 KQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3345555555555544321 34444444555555555555555555555555543

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.69  E-value=0.97  Score=41.03  Aligned_cols=78  Identities=19%  Similarity=0.195  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-----cCCCCCHHHHHH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK-----RGFLPDVITYNT  336 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~p~~~~~~~  336 (542)
                      .++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            455566666666677777777777766665 55666677777777777777777777766654     356666555444


Q ss_pred             HHHH
Q 009143          337 LLNC  340 (542)
Q Consensus       337 li~~  340 (542)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4333

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.55  E-value=0.2  Score=28.74  Aligned_cols=30  Identities=17%  Similarity=0.187  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          512 IPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       512 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      .+|..+..+|...|++++|++.|+++++.+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            356666677777777777777777776654

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 ....

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.51  E-value=1  Score=40.92  Aligned_cols=79  Identities=18%  Similarity=0.161  Sum_probs=68.0

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHH
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ-----KNIQTDIV  297 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~  297 (542)
                      ..++..++..+...|+.+.+.+.++++...++    -+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp----~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~  228 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDP----YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPE  228 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc----cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHH
Confidence            34667788888999999999999999999887    8999999999999999999999999998876     48888887


Q ss_pred             HHHHHHHH
Q 009143          298 AYNVLING  305 (542)
Q Consensus       298 ~~~~li~~  305 (542)
                      +.......
T Consensus       229 ~~~~y~~~  236 (280)
T COG3629         229 LRALYEEI  236 (280)
T ss_pred             HHHHHHHH
Confidence            77666555

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.46  E-value=4.6  Score=34.82  Aligned_cols=182  Identities=14%  Similarity=0.056  Sum_probs=95.8

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      .|-+.-|.--|.+.+...|    .-..+||-|.--+...|+++.|.+.|+...+.+..-+-...|.-| ++.-.|++.-|
T Consensus        78 lGL~~LAR~DftQaLai~P----~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LA  152 (297)
T COG4785          78 LGLRALARNDFSQALAIRP----DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLA  152 (297)
T ss_pred             hhHHHHHhhhhhhhhhcCC----CcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhh
Confidence            3444455555666666555    556678888888888888888888888888765333322333222 23346788888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          316 FAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      .+-+-+.-+.+  |+...-...+-.--+.-++.+|..-+.+-.+ |  .|..-|...|-.|.- |++. ...+++++..-
T Consensus       153 q~d~~~fYQ~D--~~DPfR~LWLYl~E~k~dP~~A~tnL~qR~~-~--~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~  225 (297)
T COG4785         153 QDDLLAFYQDD--PNDPFRSLWLYLNEQKLDPKQAKTNLKQRAE-K--SDKEQWGWNIVEFYL-GKIS-EETLMERLKAD  225 (297)
T ss_pred             HHHHHHHHhcC--CCChHHHHHHHHHHhhCCHHHHHHHHHHHHH-h--ccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhh
Confidence            77776666553  2211111111111233456666554433222 1  122223222222211 2211 11222332221


Q ss_pred             CCCC-------CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          396 SVVP-------EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       396 ~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                       ...       =..||--+..-+...|+.++|..+|+-.+..
T Consensus       226 -a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         226 -ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             -ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence             111       1346777788888889999999988887764

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.25  E-value=0.24  Score=28.34  Aligned_cols=29  Identities=17%  Similarity=0.251  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          513 PFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       513 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      .|..+...+...|++++|++.|+++++.+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            45566667777777777777777776544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.00  E-value=13  Score=38.83  Aligned_cols=120  Identities=14%  Similarity=0.167  Sum_probs=62.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDV--LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      ....-+..+.+...++.|+.+-+.-   +..++.  .....-.+.+.+.|++++|..-|-+-... ..|.     .+|.-
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~k  406 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKK  406 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHH
Confidence            3455666666767777776654432   222221  12223334445567777776665554321 1121     23444


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEV  249 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  249 (542)
                      |....+..+--.+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+..
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~  457 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKC  457 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcC
Confidence            44455555555666666666644 4444455666666666666655555443

>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=92.86  E-value=4.6  Score=33.16  Aligned_cols=53  Identities=17%  Similarity=-0.014  Sum_probs=25.9

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .+.++.+++..++..+.-..|    .....-..-...+...|++.+|.++|+++.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP----~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRP----EFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCC----CchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            344555555555555555444    22222222333445555666666666655443

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.69  E-value=15  Score=38.47  Aligned_cols=49  Identities=14%  Similarity=0.124  Sum_probs=28.5

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHc
Q 009143          152 DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRV  201 (542)
Q Consensus       152 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  201 (542)
                      +......+|-.+.++|++++|.++..+.... .......+-..+..|...
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            4444556677777888888887777444332 223445566666666654

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.

>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=92.61  E-value=27  Score=41.37  Aligned_cols=317  Identities=10%  Similarity=0.025  Sum_probs=161.9

Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHCCC--CCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHH
Q 009143          193 AFITGYCRVNELDKALHLFSTMANNGI--RPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDS  270 (542)
Q Consensus       193 ~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~  270 (542)
                      .+..+-.+.+.+.+|...++.-...-.  .....-|..+...|+..+++|....+.......      +   ....-+-.
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~------~---sl~~qil~ 1458 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFAD------P---SLYQQILE 1458 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcC------c---cHHHHHHH
Confidence            444556677788888888877311100  111233444445888888888877766542111      1   12334455


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHHhcCCHHH
Q 009143          271 YFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTL-LNCLCKQGKLDE  349 (542)
Q Consensus       271 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l-i~~~~~~g~~~~  349 (542)
                      ....|++..|...|+.+.+.+ ++...+++-++......|.++..+-..+-.... ..+....++.+ +.+--+.+++|.
T Consensus      1459 ~e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~ 1536 (2382)
T KOG0890|consen 1459 HEASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDL 1536 (2382)
T ss_pred             HHhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhh
Confidence            667788888888888888775 444667777777777777777777655555443 12333333332 334456667776


Q ss_pred             HHHHHHHHHHCCCCCChhhHHH--HHHHHHh--cCCHHHHHHHHHHHHhCCC--------C-CCHHHHHHHHHHHHhcCC
Q 009143          350 ASHFYGVLSKTGVAPDQISYKT--IIQGLCI--HGDIVKAREFLLSMLEKSV--------V-PEPHIWNVIIDGYGRCGD  416 (542)
Q Consensus       350 A~~~~~~~~~~~~~~~~~~~~~--li~~~~~--~g~~~~A~~~~~~~~~~~~--------~-~~~~~~~~li~~~~~~g~  416 (542)
                      ....+.   ..    +..+|..  +...+.+  ..+.-.-.+.++.+.+.-+        . .-...|..++..+.-..-
T Consensus      1537 ~e~~l~---~~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el 1609 (2382)
T KOG0890|consen 1537 LESYLS---DR----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLEL 1609 (2382)
T ss_pred             hhhhhh---cc----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHH
Confidence            665554   11    1122222  2222222  1221111122222222111        1 112334444444322111


Q ss_pred             hHHHHHHHHHHHhCCCCCCH------HHHHHHHHHhhcccccccCChHHHHHHHHH-HHhCCCCCC-----HHHHHHHHH
Q 009143          417 LSNAFSIRDLMLSFGVSSNV------FTFNALILAETRGASCNLGHIHLALQLYDE-MLRRGITPD-----IITYTELIK  484 (542)
Q Consensus       417 ~~~A~~~~~~m~~~~~~p~~------~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~-~~~~g~~p~-----~~~~~~li~  484 (542)
                      -... +.   .  .++.++.      ..|-.-+.-     -....+..+-+--+++ +......|+     ..+|....+
T Consensus      1610 ~~~~-~~---l--~~~s~~~~s~~~sd~W~~Rl~~-----tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAr 1678 (2382)
T KOG0890|consen 1610 ENSI-EE---L--KKVSYDEDSANNSDNWKNRLER-----TQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSAR 1678 (2382)
T ss_pred             HHHH-HH---h--hccCccccccccchhHHHHHHH-----hchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHH
Confidence            1111 11   1  1112211      111111111     0001111221111221 111111222     367888888


Q ss_pred             HHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          485 GHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       485 ~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      ....+|+++.|...+-...+.+   -+..+.-.++.+...|+...|+.++++.++.+
T Consensus      1679 iaR~aG~~q~A~nall~A~e~r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1679 IARLAGHLQRAQNALLNAKESR---LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHhcccHHHHHHHHHhhhhcc---cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            8888999999999888877764   23455567788999999999999999988654

>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=92.58  E-value=1.4  Score=37.33  Aligned_cols=62  Identities=16%  Similarity=0.100  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPE--PHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      .+..+...|++.|+.++|.+.+.++.+....+.  ...+-.+|....-.+++..+.....+...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344555556666666666666666555432222  22344455555555566555555554443

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.57  E-value=10  Score=36.39  Aligned_cols=64  Identities=17%  Similarity=0.071  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          476 IITYTELIKGHCARGNMKEAEEVFAKIQTLGLAI---DHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       476 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      ..+|..++..+.+.|+++.|...+.++...+...   ++.+.-.-.+.+...|+.++|...+++.++
T Consensus       146 ~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  146 AETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3456666666666666666666666665532111   233333445556666666666666655543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.49  E-value=0.16  Score=29.28  Aligned_cols=31  Identities=16%  Similarity=0.263  Sum_probs=17.9

Q ss_pred             HHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 009143          247 GEVLADDDGKATSDVITSTILMDSYFKNGDKFQAL  281 (542)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  281 (542)
                      ++.++..|    .+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~P----~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELNP----NNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHCC----CCHHHHHHHHHHHHHCcCHHhhc
Confidence            34444444    56666666666666666666554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.31  E-value=9.5  Score=35.46  Aligned_cols=87  Identities=9%  Similarity=0.132  Sum_probs=46.1

Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh--cC----ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC-
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCK--KG----LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD-  276 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~--~g----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-  276 (542)
                      +++.+.+++.|.+.|+.-+..+|.+..-....  ..    ....|..+++.|.+..+.-..++-.++..++..  ..++ 
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            44566778888888888777666654333332  11    234566777777766553333444444444333  2222 


Q ss_pred             ---HHHHHHHHHHHHHCCC
Q 009143          277 ---KFQALALWNDMFQKNI  292 (542)
Q Consensus       277 ---~~~a~~~~~~~~~~~~  292 (542)
                         .+.+...|+.+.+.|+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f  174 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGF  174 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCC
Confidence               2344445555555443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.28  E-value=14  Score=37.19  Aligned_cols=184  Identities=13%  Similarity=0.054  Sum_probs=104.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHH
Q 009143          330 DVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV--PEPHIWNVI  407 (542)
Q Consensus       330 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l  407 (542)
                      +..+|..-+.--.+.|+.+.+.-+|+...-. +..-...|-..+......|+.+-|..++....+-..+  |....+.+.
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            3456666677777788888888888766542 2222344555555555568888787777766654433  222333332


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHH---HHHHHHhCCCCCCHHHHHHH--
Q 009143          408 IDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQ---LYDEMLRRGITPDIITYTEL--  482 (542)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~---~~~~~~~~g~~p~~~~~~~l--  482 (542)
                      +  ....|+++.|..+++.+.+.-  |+.......-..    ...+.|..+.+..   ++......  .-+......+  
T Consensus       375 f--~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~----~e~r~~~~~~~~~~~~l~s~~~~~--~~~~~i~~~l~~  444 (577)
T KOG1258|consen  375 F--EESNGNFDDAKVILQRIESEY--PGLVEVVLRKIN----WERRKGNLEDANYKNELYSSIYEG--KENNGILEKLYV  444 (577)
T ss_pred             H--HHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHh----HHHHhcchhhhhHHHHHHHHhccc--ccCcchhHHHHH
Confidence            2  344678888888888887752  554321111110    1335577777763   33322221  1122222222  


Q ss_pred             --HH-HHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcC
Q 009143          483 --IK-GHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMK  525 (542)
Q Consensus       483 --i~-~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g  525 (542)
                        .+ .+.-.++.+.|..++.++.+. .+++...|..+++.....+
T Consensus       445 ~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  445 KFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence              22 123367888888888888876 4567777888887776555

>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=91.99  E-value=6.4  Score=32.77  Aligned_cols=101  Identities=18%  Similarity=0.278  Sum_probs=49.7

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHH
Q 009143          387 EFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDE  466 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~  466 (542)
                      +.++.+.+.++.|+...+..+++.+.+.|++...    ..+.+.++-||.......+-.+.   .....-.+-|++++.+
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~---~~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLG---NQYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhH---ccChHHHHHHHHHHHH
Confidence            4444555566666666666666766666665433    33344444555544443332210   0000112223333333


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          467 MLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKI  502 (542)
Q Consensus       467 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  502 (542)
                      +..        .+..+++.+...|++-+|.++....
T Consensus        88 L~~--------~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 LGT--------AYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             hhh--------hHHHHHHHHHhCCCHHHHHHHHHHc
Confidence            321        2445566667777777777766554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.97  E-value=0.41  Score=28.00  Aligned_cols=27  Identities=15%  Similarity=0.182  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      +|..|...|.+.|++++|++++++...
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            478899999999999999999999553

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.95  E-value=14  Score=36.46  Aligned_cols=180  Identities=14%  Similarity=0.054  Sum_probs=110.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 009143          328 LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVI  407 (542)
Q Consensus       328 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  407 (542)
                      ..|.....+++..+....+..-.+.+..+|...|  .+-..|..+++.|... ..++-..+|+++.+.... |+..-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHH
Confidence            3455566677777777777777777777777754  3566777777777776 446677777777776654 55555556


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCC-----CHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh-CCCCCCHHHHHH
Q 009143          408 IDGYGRCGDLSNAFSIRDLMLSFGVSS-----NVFTFNALILAETRGASCNLGHIHLALQLYDEMLR-RGITPDIITYTE  481 (542)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p-----~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~  481 (542)
                      ..-|.+ ++.+.+...|..+...-++.     -...|..+...       -..+.+....+..++.. .|..--.+.+.-
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~-------i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qd  210 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL-------IGDDKDFFLRLQKKIQTKLGEGRGSVLMQD  210 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh-------ccccHHHHHHHHHHHHHhhccchHHHHHHH
Confidence            665555 67777777777766532210     11244445431       12566666666666665 444444455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHH
Q 009143          482 LIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKR  520 (542)
Q Consensus       482 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~  520 (542)
                      +-.-|....++.+|.+++....++.-+ |...-..++.-
T Consensus       211 v~~~Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~  248 (711)
T COG1747         211 VYKKYSENENWTEAIRILKHILEHDEK-DVWARKEIIEN  248 (711)
T ss_pred             HHHHhccccCHHHHHHHHHHHhhhcch-hhhHHHHHHHH
Confidence            666777788888888888876665322 43333344433

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.90  E-value=2.2  Score=38.80  Aligned_cols=106  Identities=21%  Similarity=0.264  Sum_probs=75.4

Q ss_pred             CCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCC---CCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh
Q 009143          147 KGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR---PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR  223 (542)
Q Consensus       147 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  223 (542)
                      .|......+...++..-....+++.++..+-++....   ..|+. +-.+.++.+ -.=++++++.++..=+..|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irll-lky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHH-HccChHHHHHHHhCcchhccccch
Confidence            3555566666677776667788888888877765421   11221 112233333 334677888888888889999999


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  254 (542)
                      .+++.+++.+.+.+++.+|.++...++....
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe~  166 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQEA  166 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999888877554

>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=91.74  E-value=2.9  Score=35.51  Aligned_cols=60  Identities=15%  Similarity=0.145  Sum_probs=32.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHHcCChhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD--VLTHNYLVNELCKIGDLEKADHVIREM  179 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~  179 (542)
                      .+..+...|++.|+.+.|++.|.++.+....+.  ...+..+|+...-.|++..+...+.+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            455666666666666666666666655432222  233445555555556655555554444

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.

>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=91.72  E-value=6.9  Score=32.59  Aligned_cols=22  Identities=14%  Similarity=0.089  Sum_probs=9.2

Q ss_pred             CCCCCCHHhHHHHHHHHHHcCC
Q 009143          182 MRPSPNCATYNAFITGYCRVNE  203 (542)
Q Consensus       182 ~~~~~~~~~~~~li~~~~~~g~  203 (542)
                      .+..|+...+..+++.+.+.|+
T Consensus        23 ~~i~~~~~L~~lli~lLi~~~~   44 (167)
T PF07035_consen   23 HNIPVQHELYELLIDLLIRNGQ   44 (167)
T ss_pred             cCCCCCHHHHHHHHHHHHHcCC
Confidence            3333444444444444444443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.25  E-value=11  Score=33.81  Aligned_cols=53  Identities=11%  Similarity=0.171  Sum_probs=29.1

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      ..+.++|+.-|.++++..+....-.-.+.-.++..+.+.|++++....+.+++
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlL   92 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLL   92 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            34566677777777665542211222334445556666666666666666554

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.21  E-value=0.0069  Score=49.64  Aligned_cols=86  Identities=13%  Similarity=0.108  Sum_probs=60.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC
Q 009143          123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN  202 (542)
Q Consensus       123 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  202 (542)
                      .+|..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            467777788889999999999887765667888899999999998888886666521       1123345666677777


Q ss_pred             ChhhHHHHHHHHH
Q 009143          203 ELDKALHLFSTMA  215 (542)
Q Consensus       203 ~~~~A~~~~~~m~  215 (542)
                      .+++|.-++.++.
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            7777777776643

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.17  E-value=0.28  Score=28.33  Aligned_cols=32  Identities=19%  Similarity=0.230  Sum_probs=21.6

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 009143          389 LLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAF  421 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  421 (542)
                      +++.++..+. +...|+.+...|...|++++|.
T Consensus         2 y~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            3455555544 6777777777777777777764

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.17  E-value=9.3  Score=33.04  Aligned_cols=63  Identities=17%  Similarity=0.147  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          332 ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       332 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      ..||-+.-.+...|+++.|.+.|+...+.+..-+-...|.-|..| -.|++.-|.+-+...-+.
T Consensus       100 ~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~Y-Y~gR~~LAq~d~~~fYQ~  162 (297)
T COG4785         100 EVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY-YGGRYKLAQDDLLAFYQD  162 (297)
T ss_pred             HHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeee-ecCchHhhHHHHHHHHhc
Confidence            444544445555555555555555555543222222222222221 235555555444444333

>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=91.02  E-value=0.5  Score=27.02  Aligned_cols=29  Identities=24%  Similarity=0.309  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          513 PFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       513 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      +|..+...|...|+.++|.+.|++.++.+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            45566677777777777777777776543

...

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=90.75  E-value=20  Score=36.10  Aligned_cols=358  Identities=13%  Similarity=0.057  Sum_probs=201.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH-HcCChhHHHHHHHHHhhCCCC--CCHHhHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELC-KIGDLEKADHVIREMSEMRPS--PNCATYNAFIT  196 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~  196 (542)
                      -|-.....=.+-|..+.+..+|++-++. ++-+...|.....-+. ..|+.+...+.|+........  .+...|...|.
T Consensus        81 yW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie  159 (577)
T KOG1258|consen   81 YWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIE  159 (577)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHH
Confidence            4566666666778899999999998874 5556666766554443 457788888888887653211  34567888888


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHH---hc------CChhHHHHHHHHHHhC---------------
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALC---KK------GLLGDAVKFLGEVLAD---------------  252 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~---~~------g~~~~a~~~~~~~~~~---------------  252 (542)
                      .-..++++.....++++..+.   | ...|+....-|.   +.      ...+++.++-......               
T Consensus       160 ~en~qks~k~v~~iyeRilei---P-~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~  235 (577)
T KOG1258|consen  160 FENGQKSWKRVANIYERILEI---P-LHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEI  235 (577)
T ss_pred             HHhccccHHHHHHHHHHHHhh---h-hhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHH
Confidence            888889999999999998864   2 122222222111   11      2233333332222210               


Q ss_pred             -----CCCCCCCcHHHHHHHHH-------HHHhcCCHHHHHHHHHHHHHC---C----CCCCHHHHHHHHHHHHhCCCHH
Q 009143          253 -----DDGKATSDVITSTILMD-------SYFKNGDKFQALALWNDMFQK---N----IQTDIVAYNVLINGFCLNGDIS  313 (542)
Q Consensus       253 -----~~~~~~~~~~~~~~l~~-------~~~~~g~~~~a~~~~~~~~~~---~----~~~~~~~~~~li~~~~~~~~~~  313 (542)
                           .. ..+.-....+.+..       .+.......+....|+.-...   .    .+++..+|..-+..-.+.|+.+
T Consensus       236 ~v~~~~~-~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~  314 (577)
T KOG1258|consen  236 GVKDSTD-PSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFS  314 (577)
T ss_pred             HHhhccC-ccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHH
Confidence                 00 00000011111111       111111222222223332221   0    1235567888888889999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH-hcCCHHHHHHHHHHH
Q 009143          314 SAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC-IHGDIVKAREFLLSM  392 (542)
Q Consensus       314 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~-~~g~~~~A~~~~~~~  392 (542)
                      .+.-+|+...-- +..=...|-..+.-....|+.+.|..++....+-.++ +......+-..+. ..|+++.|..+++.+
T Consensus       315 ~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k-~~~~i~L~~a~f~e~~~n~~~A~~~lq~i  392 (577)
T KOG1258|consen  315 RVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVK-KTPIIHLLEARFEESNGNFDDAKVILQRI  392 (577)
T ss_pred             HHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCC-CCcHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            999999887642 1222334444444445558888888887766554332 2222222223333 357999999999999


Q ss_pred             HhCCCCCCHH-HHHHHHHHHHhcCChHHHH---HHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHH
Q 009143          393 LEKSVVPEPH-IWNVIIDGYGRCGDLSNAF---SIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEML  468 (542)
Q Consensus       393 ~~~~~~~~~~-~~~~li~~~~~~g~~~~A~---~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~  468 (542)
                      .+.-  |+.. .-..-+....+.|+.+.+.   .++.........+..  ...+..-++.--+.-.++.+.|..++.++.
T Consensus       393 ~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i--~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~  468 (577)
T KOG1258|consen  393 ESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGI--LEKLYVKFARLRYKIREDADLARIILLEAN  468 (577)
T ss_pred             HhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcch--hHHHHHHHHHHHHHHhcCHHHHHHHHHHhh
Confidence            8764  4432 2222344456778888877   444444432222222  111211111112444589999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcC
Q 009143          469 RRGITPDIITYTELIKGHCARG  490 (542)
Q Consensus       469 ~~g~~p~~~~~~~li~~~~~~g  490 (542)
                      +. ++++...|..+++.....+
T Consensus       469 ~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  469 DI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             hc-CCccHHHHHHHHHHHHhCC
Confidence            86 4566778888888776655

>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=90.53  E-value=8.7  Score=31.61  Aligned_cols=52  Identities=17%  Similarity=0.104  Sum_probs=24.6

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVA-YNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .+.++.+++..+++.+.-.  .|.... -..-...+...|++.+|+.+|+++.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3445556666665555543  222211 111222344556666666666665443

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=90.43  E-value=25  Score=36.76  Aligned_cols=29  Identities=17%  Similarity=0.273  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHhC---CCHHHHHHHHHHHHHc
Q 009143          297 VAYNVLINGFCLN---GDISSAFAYFCQMLKR  325 (542)
Q Consensus       297 ~~~~~li~~~~~~---~~~~~A~~~~~~~~~~  325 (542)
                      .-+..||..|.+.   .+..+|.++|-.+...
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            4567777777663   5677788877766554

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.18  E-value=3.6  Score=34.96  Aligned_cols=95  Identities=16%  Similarity=0.076  Sum_probs=54.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHH
Q 009143          408 IDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDI-ITYTELIKGH  486 (542)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~  486 (542)
                      ..-+.+.|++++|..-|.+.++. +++...-..+++..-...++.+.+.++.|+.-..+.++.+  |+. ....--..+|
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~--pty~kAl~RRAeay  178 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN--PTYEKALERRAEAY  178 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC--chhHHHHHHHHHHH
Confidence            34477778888888888877775 2333333333332222223556677777777776666643  221 2222234466


Q ss_pred             HhcCCHHHHHHHHHHHhHc
Q 009143          487 CARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       487 ~~~g~~~~A~~~~~~m~~~  505 (542)
                      -+..++++|++=+.++.+.
T Consensus       179 ek~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  179 EKMEKYEEALEDYKKILES  197 (271)
T ss_pred             HhhhhHHHHHHHHHHHHHh
Confidence            6677777777777777665

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.05  E-value=18  Score=34.60  Aligned_cols=66  Identities=14%  Similarity=0.034  Sum_probs=44.8

Q ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          294 TDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLP---DVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       294 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      ....+|..++..+.+.|.++.|...+.++...+...   ++.....-++..-..|+..+|...++...+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445667777888888888888888888877643211   333444445566677888888887777666

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.94  E-value=7  Score=39.12  Aligned_cols=99  Identities=17%  Similarity=0.160  Sum_probs=49.5

Q ss_pred             HHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          199 CRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      .+.|+.+.|.++..+..      +..-|..|.++..+.+++..|.+.|.....            |..|+-.+...|+.+
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d------------~~~LlLl~t~~g~~~  709 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD------------LGSLLLLYTSSGNAE  709 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc------------hhhhhhhhhhcCChh
Confidence            34555565555544332      344555666666666666666665554422            233444455555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQ  321 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  321 (542)
                      ....+-....+.| ..|..     .-+|...|+++++.+++..
T Consensus       710 ~l~~la~~~~~~g-~~N~A-----F~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  710 GLAVLASLAKKQG-KNNLA-----FLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHHHHhhc-ccchH-----HHHHHHcCCHHHHHHHHHh
Confidence            4444444444444 22221     1234445666666665544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.73  E-value=4.6  Score=36.91  Aligned_cols=104  Identities=13%  Similarity=0.192  Sum_probs=60.4

Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 009143          290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG---FLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQ  366 (542)
Q Consensus       290 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~---~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  366 (542)
                      .|.+....+...++..-....+++.+...+-++....   ..|+... .++++.+ -.-++++++.++..=++.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irll-lky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHH-HccChHHHHHHHhCcchhccccch
Confidence            3445555555555555555666777777666665431   1111111 1122222 223566777777666677777777


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          367 ISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       367 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      .+++.+++.+.+.+++.+|.++.-.|...
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            77777777777777777777766666544

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=89.61  E-value=2.7  Score=40.63  Aligned_cols=119  Identities=17%  Similarity=0.121  Sum_probs=63.2

Q ss_pred             hcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCC
Q 009143          378 IHGDIVKAREFLLSMLEKS-VVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGH  456 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~  456 (542)
                      ..|+...|-+-+...+... ..|+.....+  ..+...|+++.+...+...... +.....+..+++..     ..+.|+
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~-----~~~l~r  372 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRS-----LHGLAR  372 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHh-----hhchhh
Confidence            4566666654444444332 2333333333  3345567777777666554432 23344555555554     455677


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          457 IHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       457 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      +++|...-+.|....++ ++.........--..|-++++...|++....
T Consensus       373 ~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        373 WREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            77777777777665444 3333332233333456667777777766654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.38  E-value=10  Score=30.70  Aligned_cols=51  Identities=10%  Similarity=-0.022  Sum_probs=23.1

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .++.+++..++..+.-..|..  +...+  .-...+...|++++|.++|+++.+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~--~e~d~--~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNL--KELDM--FDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCc--cccch--hHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            455555555555554444311  22222  2223344555555555555555543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.07  E-value=9.3  Score=38.32  Aligned_cols=98  Identities=15%  Similarity=0.083  Sum_probs=51.3

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHH
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDIS  313 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  313 (542)
                      .+.|+++.|.++..+.         .+..-|..|.++..+.|++..|.+.|....+         |..|+-.+...|+.+
T Consensus       648 l~lgrl~iA~~la~e~---------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~  709 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA---------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAE  709 (794)
T ss_pred             hhcCcHHHHHHHHHhh---------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChh
Confidence            4556666666655544         4455566666666666666666666655442         334444455555555


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          314 SAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYG  355 (542)
Q Consensus       314 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  355 (542)
                      ....+-....+.|. .+     ...-+|...|+++++.+++.
T Consensus       710 ~l~~la~~~~~~g~-~N-----~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  710 GLAVLASLAKKQGK-NN-----LAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHHHHHhhcc-cc-----hHHHHHHHcCCHHHHHHHHH
Confidence            44444444444431 11     22234445566666655553

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.01  E-value=0.95  Score=27.22  Aligned_cols=28  Identities=18%  Similarity=0.220  Sum_probs=16.7

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          512 IPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       512 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      .+++.+...|...|++++|.++++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3455666666666666666666666643

>PRK09687 putative lyase; Provisional

Probab=88.88  E-value=19  Score=33.22  Aligned_cols=234  Identities=11%  Similarity=0.048  Sum_probs=127.1

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCH----HHHHHHHHHHHHcCCCCCHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDI----SSAFAYFCQMLKRGFLPDVITY  334 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~A~~~~~~~~~~~~~p~~~~~  334 (542)
                      ++..+....+..+...|.. ++...+..+..   .+|...-...+.++...|+.    +++...+..+...  .++....
T Consensus        35 ~d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQ-DVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcc-hHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHH
Confidence            4444555555555555542 23333333333   34555555566666666653    4566666666443  4555555


Q ss_pred             HHHHHHHHhcCCH-----HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009143          335 NTLLNCLCKQGKL-----DEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIID  409 (542)
Q Consensus       335 ~~li~~~~~~g~~-----~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  409 (542)
                      ...+.++...+..     ..+...+.....   .++..+-...+.++.+.++ .++...+..+++.   ++...-...+.
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~  181 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHH
Confidence            5566655554321     222333322222   2355666667777777776 4666666666653   34455555555


Q ss_pred             HHHhcC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 009143          410 GYGRCG-DLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCA  488 (542)
Q Consensus       410 ~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~  488 (542)
                      ++.+.+ +.+.+...+..+..   .++...-...+.+     +.+.|+ ..|...+-+..+.+   +  .....+.++..
T Consensus       182 aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~a-----Lg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~  247 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIG-----LALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGE  247 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHH-----HHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHh
Confidence            555543 24456666666654   3444444444444     445565 45555555555532   2  23456777778


Q ss_pred             cCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHH
Q 009143          489 RGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR  522 (542)
Q Consensus       489 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~  522 (542)
                      .|.. +|...+..+.+.  .||..+-...+.++.
T Consensus       248 ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        248 LGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             cCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            7775 677777777763  257666666666554

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=88.55  E-value=4.9  Score=34.40  Aligned_cols=45  Identities=18%  Similarity=0.023  Sum_probs=18.1

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQA  280 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  280 (542)
                      ..+.+++.+++.++++........++..+.+|+..+.+.|+++.|
T Consensus       153 krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  153 KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            334444444444444332211123444444444444444444433

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.48  E-value=15  Score=31.35  Aligned_cols=93  Identities=15%  Similarity=0.064  Sum_probs=55.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 009143          409 DGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCA  488 (542)
Q Consensus       409 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~  488 (542)
                      ..+...+++++|..-++....   .|....+..++.--........|.+++|+..++.....+.  .......-.+.+..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~---~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALA---QTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHc---cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHH
Confidence            445666777777777766654   2333333333322111124456777777777776665422  22334455677888


Q ss_pred             cCCHHHHHHHHHHHhHcC
Q 009143          489 RGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       489 ~g~~~~A~~~~~~m~~~g  506 (542)
                      .|+-++|..-|++..+.+
T Consensus       172 kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         172 KGDKQEARAAYEKALESD  189 (207)
T ss_pred             cCchHHHHHHHHHHHHcc
Confidence            888888888888887764

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.70  E-value=31  Score=34.17  Aligned_cols=178  Identities=15%  Similarity=0.136  Sum_probs=83.0

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNV  301 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  301 (542)
                      |.....+++..+.......-.+.+-.+++..+     .+-..+..++++|... ..+.-..+|+++.+..+ .|++.-..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~-----e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~Re  137 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG-----ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRE  137 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc-----chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHH
Confidence            44444555555555555555555555555544     3344555556665555 44555556665555432 22222233


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCC--C---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhhHHHHHHH
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKRGFLP--D---VITYNTLLNCLCKQGKLDEASHFYGVLSKT-GVAPDQISYKTIIQG  375 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~~~~p--~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~  375 (542)
                      |...|-+ ++.+.+..+|.++...-++-  +   ...|..+...  -..+.|....+...+... |...-...+..+-.-
T Consensus       138 La~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         138 LADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HHHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence            3333332 55555555555554432110  0   1122222221  122444444444444332 222223344444455


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009143          376 LCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDG  410 (542)
Q Consensus       376 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  410 (542)
                      |....++++|++++..+++.+-+ |...-..++.-
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            55566666666666666665443 44444444443

>PRK09687 putative lyase; Provisional

Probab=87.57  E-value=23  Score=32.67  Aligned_cols=126  Identities=13%  Similarity=0.109  Sum_probs=59.2

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCh----hHHHHHHHHHhhCCCCCCHHhH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDL----EKADHVIREMSEMRPSPNCATY  191 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~----~~A~~~~~~~~~~~~~~~~~~~  191 (542)
                      +|.......+.++...|. +++...+..+.+.   +|...-...+.++.+.|+.    +++...+..+....  ++...-
T Consensus        35 ~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D--~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALED--KSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC--CCHHHH
Confidence            555556666666666665 3334444444432   3555555666666666653    34566665553322  344444


Q ss_pred             HHHHHHHHHcCCh-----hhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 009143          192 NAFITGYCRVNEL-----DKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLA  251 (542)
Q Consensus       192 ~~li~~~~~~g~~-----~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  251 (542)
                      ...+.++...+..     ..+...+.....   .++..+-...+.++.+.++ +.+...+-.++.
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~  169 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLK  169 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc
Confidence            4444444443221     122222222222   2244444444555555544 344444444444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.54  E-value=1.9  Score=24.52  Aligned_cols=29  Identities=24%  Similarity=0.285  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          477 ITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       477 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      .+|..++.+|...|++++|+..+++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            46788899999999999999999998875

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.43  E-value=3.5  Score=38.04  Aligned_cols=85  Identities=20%  Similarity=0.156  Sum_probs=35.5

Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          198 YCRVNELDKALHLFSTMANNGIRP-NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      |.++|++++|++.|.+-...  .| |.+++..-..+|.+...+..|+.-...++..+.    .-+.+|..-+.+-...|.
T Consensus       107 yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~----~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDK----LYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH----HHHHHHHHHHHHHHHHhh
Confidence            44445555555544443332  22 444444444444444444444443333333322    223333333333333344


Q ss_pred             HHHHHHHHHHHH
Q 009143          277 KFQALALWNDMF  288 (542)
Q Consensus       277 ~~~a~~~~~~~~  288 (542)
                      ..+|.+=++..+
T Consensus       181 ~~EAKkD~E~vL  192 (536)
T KOG4648|consen  181 NMEAKKDCETVL  192 (536)
T ss_pred             HHHHHHhHHHHH
Confidence            444444444443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.42  E-value=1.9  Score=24.41  Aligned_cols=29  Identities=31%  Similarity=0.263  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          477 ITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       477 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      ..|..+...+...|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            45677888999999999999999998875

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 ....

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.28  E-value=47  Score=35.85  Aligned_cols=116  Identities=11%  Similarity=0.072  Sum_probs=69.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhCCCH--HHHHHHHHHHHHcCCCCCHHHHHH-
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKN---IQTDIVAYNVLINGFCLNGDI--SSAFAYFCQMLKRGFLPDVITYNT-  336 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~--~~A~~~~~~~~~~~~~p~~~~~~~-  336 (542)
                      -|..|+..|...|+.++|+++|.+..+..   -..-...+...+..+.+.+..  +-++++-....+....-....+.. 
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~  585 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSE  585 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeecc
Confidence            47889999999999999999999988632   111122233455555555544  555555444443321111111111 


Q ss_pred             -----------HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 009143          337 -----------LLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI  378 (542)
Q Consensus       337 -----------li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  378 (542)
                                 .+-.|......+.+...++.+....-.++....+.++..|++
T Consensus       586 ~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  586 DKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             ChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHH
Confidence                       222455666777788888888776556667777777777764

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.23  E-value=52  Score=36.30  Aligned_cols=74  Identities=19%  Similarity=0.123  Sum_probs=42.7

Q ss_pred             cccCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhH
Q 009143          452 CNLGHIHLALQLYDEMLRRGITPDI--ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDK  529 (542)
Q Consensus       452 ~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~  529 (542)
                      ..+|++.+|+.+..++..   .-+.  .+-..|+.-+...+++-+|.++..+....   |     ...+..|++...+++
T Consensus       976 ~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~e 1044 (1265)
T KOG1920|consen  976 KECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEE 1044 (1265)
T ss_pred             HHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHH
Confidence            344555555555554432   1122  12256777777888888888887776553   2     133445666777777


Q ss_pred             HHHHHHH
Q 009143          530 ARDIHQK  536 (542)
Q Consensus       530 A~~~~~~  536 (542)
                      |..+...
T Consensus      1045 Alrva~~ 1051 (1265)
T KOG1920|consen 1045 ALRVASK 1051 (1265)
T ss_pred             HHHHHHh
Confidence            7765543

>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=87.12  E-value=7.2  Score=33.40  Aligned_cols=75  Identities=11%  Similarity=0.058  Sum_probs=52.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc---CCCCChhHHHHHHHHHHhcCChhHHH
Q 009143          456 HIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTL---GLAIDHIPFRILKKRYRRMKESDKAR  531 (542)
Q Consensus       456 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~~~~~~~~~l~~~~~~~g~~~~A~  531 (542)
                      .-+.|.+.|-++...+.--++.....|..-| ...+.++|..++.+..+.   +-.+|+..+.+|+..+.+.|+++.|-
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            4566777777777765554555555555444 466788888888877762   33577888888888888888888764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.43  E-value=1.9  Score=25.77  Aligned_cols=29  Identities=21%  Similarity=0.239  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          476 IITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       476 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      ..+++.|...|...|++++|..++++..+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35788999999999999999999998875

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=86.18  E-value=37  Score=33.55  Aligned_cols=399  Identities=12%  Similarity=0.077  Sum_probs=194.1

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHH
Q 009143          115 ETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQK-GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNA  193 (542)
Q Consensus       115 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  193 (542)
                      +.|+..|...+..+-+.+.+.+.-.+|..|+.. +..|+..++.+.=. |-..-.++.|..+|.+-++..|. +...|-.
T Consensus       102 ~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~we-fe~n~ni~saRalflrgLR~npd-sp~Lw~e  179 (568)
T KOG2396|consen  102 NGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWE-FEINLNIESARALFLRGLRFNPD-SPKLWKE  179 (568)
T ss_pred             CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhH-HhhccchHHHHHHHHHHhhcCCC-ChHHHHH
Confidence            358999999998888888899999999999986 33344443332221 22333489999999988886653 3444433


Q ss_pred             HHHHHH----Hc-------C-ChhhH-HHHHHHHHH-CCCCCChHHHHH---H--HHHHHhcCChhHH-HHHHHHHHhCC
Q 009143          194 FITGYC----RV-------N-ELDKA-LHLFSTMAN-NGIRPNRVTHNI---L--VHALCKKGLLGDA-VKFLGEVLADD  253 (542)
Q Consensus       194 li~~~~----~~-------g-~~~~A-~~~~~~m~~-~g~~p~~~~~~~---l--~~~~~~~g~~~~a-~~~~~~~~~~~  253 (542)
                      ..+.-.    +.       | +...- .++-+.-.. ....++..+...   .  ....-......+. ..+.+.+...+
T Consensus       180 yfrmEL~~~~Kl~~rr~~~g~~~~~~~~eie~ge~~~~~~~~s~~~~~~~~k~~e~~~~~~~d~~kel~k~i~d~~~~~~  259 (568)
T KOG2396|consen  180 YFRMELMYAEKLRNRREELGLDSSDKDEEIERGELAWINYANSVDIIKGAVKSVELSVAEKFDFLKELQKNIIDDLQSKA  259 (568)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhccchhhhhcchhhcchHHHHHHHHHHHHHHHHHHHHhccC
Confidence            332211    00       0 00000 111000000 001111111000   0  0000000111111 11222333323


Q ss_pred             CCCCCCcHHHHHHHHH----HHHh---------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC----
Q 009143          254 DGKATSDVITSTILMD----SYFK---------------NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG----  310 (542)
Q Consensus       254 ~~~~~~~~~~~~~l~~----~~~~---------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----  310 (542)
                      +    .++.++.-+..    .+.+               .-+.+....+|++..+.  .|+...|+..|..|...-    
T Consensus       260 ~----~np~~~~~laqr~l~i~~~tdl~~~~~~~~~~~~~~k~s~~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r  333 (568)
T KOG2396|consen  260 P----DNPLLWDDLAQRELEILSQTDLQHTDNQAKAVEVGSKESRCCAVYEEAVKT--LPTESMWECYITFCLERFTFLR  333 (568)
T ss_pred             C----CCCccHHHHHHHHHHHHHHhhccchhhhhhchhcchhHHHHHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhh
Confidence            3    23333322221    1111               11223344566666543  455566666666554432    


Q ss_pred             --CHHHHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC-CHHH
Q 009143          311 --DISSAFAYFCQMLKRG-FLP-DVITYNTLLNCLCKQGKL-DEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG-DIVK  384 (542)
Q Consensus       311 --~~~~A~~~~~~~~~~~-~~p-~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~  384 (542)
                        .....+.+++...+.+ ..+ ....|..+.-.++..... +.|..+..+.    +..+...|..-+....+.. +++-
T Consensus       334 ~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~a~~l~~e~----f~~s~k~~~~kl~~~~~s~sD~q~  409 (568)
T KOG2396|consen  334 GKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREVAVKLTTEL----FRDSGKMWQLKLQVLIESKSDFQM  409 (568)
T ss_pred             hhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHHHHHhhHHH----hcchHHHHHHHHHHHHhhcchhHH
Confidence              3344455555554432 222 234455555555554433 2333333232    2334455544444444221 2111


Q ss_pred             H-HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hHHH-H-HHHHHHHhCCCCCCHHHHHH-HHHHhhcccccccCChHH
Q 009143          385 A-REFLLSMLEKSVVPEPHIWNVIIDGYGRCGD-LSNA-F-SIRDLMLSFGVSSNVFTFNA-LILAETRGASCNLGHIHL  459 (542)
Q Consensus       385 A-~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A-~-~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~g~~~~  459 (542)
                      - .+++......-..+....|+...     .|+ .... . .++..... -..|+..|+.. ++..     +...|...+
T Consensus       410 ~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~~s-~~~~~~~tl~s~~l~~-----~~e~~~~~~  478 (568)
T KOG2396|consen  410 LFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISALLS-VIGADSVTLKSKYLDW-----AYESGGYKK  478 (568)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHHHHH-hcCCceeehhHHHHHH-----HHHhcchHH
Confidence            1 12222222221222333344433     122 1111 1 11222222 23455555433 3332     556789999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHhH-cCCCCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 009143          460 ALQLYDEMLRRGITPDIITYTELIKGHC--ARGNMKEAEEVFAKIQT-LGLAIDHIPFRILKKRYRRMKESDKARDIHQK  536 (542)
Q Consensus       460 A~~~~~~~~~~g~~p~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~-~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  536 (542)
                      |.+.+..+... .+|+...|..+|..-.  ..-+...+.++++.|.. .|  -|+..|...+.--...|..+.+-.++.+
T Consensus       479 ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--~d~~lw~~y~~~e~~~g~~en~~~~~~r  555 (568)
T KOG2396|consen  479 ARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--ADSDLWMDYMKEELPLGRPENCGQIYWR  555 (568)
T ss_pred             HHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--CChHHHHHHHHhhccCCCcccccHHHHH
Confidence            99999999886 3567788887775432  23448888999999887 56  5888888888777788999988888887


Q ss_pred             Hhh
Q 009143          537 WLL  539 (542)
Q Consensus       537 ~l~  539 (542)
                      ++.
T Consensus       556 a~k  558 (568)
T KOG2396|consen  556 AMK  558 (568)
T ss_pred             HHH
Confidence            753

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.42  E-value=20  Score=30.65  Aligned_cols=19  Identities=42%  Similarity=0.485  Sum_probs=8.8

Q ss_pred             HHHcCChhHHHHHHHHHhh
Q 009143          163 LCKIGDLEKADHVIREMSE  181 (542)
Q Consensus       163 ~~~~g~~~~A~~~~~~~~~  181 (542)
                      +.+.|++++|..-|.+.++
T Consensus       105 ~F~ngdyeeA~skY~~Ale  123 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALE  123 (271)
T ss_pred             hhhcccHHHHHHHHHHHHH
Confidence            4444444444444444444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.48  E-value=32  Score=31.38  Aligned_cols=60  Identities=15%  Similarity=0.160  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      +++.....|..+|.+.+|.++.++....+ +.+...+-.|+..+...|+--.+...++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            34445556666777777777777776665 5666667777777777777666666666554

>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=84.44  E-value=20  Score=30.19  Aligned_cols=41  Identities=22%  Similarity=0.293  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          313 SSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      ++|.+.|++..+.  .|+...|..-+...      ++|-+++.++.+.+
T Consensus        97 ~kA~~~FqkAv~~--~P~ne~Y~ksLe~~------~kap~lh~e~~~~~  137 (186)
T PF06552_consen   97 EKATEYFQKAVDE--DPNNELYRKSLEMA------AKAPELHMEIHKQG  137 (186)
T ss_dssp             HHHHHHHHHHHHH---TT-HHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHhc--CCCcHHHHHHHHHH------HhhHHHHHHHHHHH
Confidence            4444444444443  56666666655544      23455555555543

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.41  E-value=9  Score=28.28  Aligned_cols=64  Identities=5%  Similarity=0.039  Sum_probs=45.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHH
Q 009143          456 HIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKR  520 (542)
Q Consensus       456 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~  520 (542)
                      +.-++.+-+..+....+.|++....+.+++|.+.+++.-|.++++-.+... ..+...|..++.-
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHHH
Confidence            344556666666677788899888899999999999999999998777431 1234456655543

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.98  E-value=7  Score=36.16  Aligned_cols=93  Identities=15%  Similarity=0.065  Sum_probs=68.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC
Q 009143          231 HALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG  310 (542)
Q Consensus       231 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  310 (542)
                      +-|.+.|.+++|+..+...+...+    .+.+++..-..+|.+...+..|..=....+..+ ..-...|..-+.+-...|
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P----~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYP----HNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCC----CCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHh
Confidence            557899999999999999988776    688999999999999998888877666666443 223344555555555566


Q ss_pred             CHHHHHHHHHHHHHcCCCCC
Q 009143          311 DISSAFAYFCQMLKRGFLPD  330 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~~~~p~  330 (542)
                      +..+|.+-++..++.  .|+
T Consensus       180 ~~~EAKkD~E~vL~L--EP~  197 (536)
T KOG4648|consen  180 NNMEAKKDCETVLAL--EPK  197 (536)
T ss_pred             hHHHHHHhHHHHHhh--Ccc
Confidence            777777777666664  555

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.94  E-value=8.3  Score=28.77  Aligned_cols=61  Identities=5%  Similarity=0.053  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHH
Q 009143          459 LALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKR  520 (542)
Q Consensus       459 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~  520 (542)
                      +..+-+..+....+.|++....+.+++|.+.+++.-|.++++-.+.. ..+....|..++.-
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqE   88 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHH
Confidence            45555666666778889988889999999999999999999887764 12223366666543

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.39  E-value=9.7  Score=28.43  Aligned_cols=47  Identities=9%  Similarity=0.071  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +..+-++.+...++.|++.+..+.+.+|.+.+++..|.++|+-...+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44455555555556666666666666666666666666666665543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.13  E-value=12  Score=27.60  Aligned_cols=45  Identities=9%  Similarity=0.063  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      ++.+-++.+...++.|++....+.+++|.+.+++..|.++|+-.+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444555555555556666666666666666666666666665554

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.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.49  E-value=34  Score=30.17  Aligned_cols=28  Identities=14%  Similarity=0.115  Sum_probs=17.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009143          408 IDGYGRCGDLSNAFSIRDLMLSFGVSSN  435 (542)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (542)
                      ..--...+++.+|+++|++.....+..+
T Consensus       161 A~yaa~leqY~~Ai~iyeqva~~s~~n~  188 (288)
T KOG1586|consen  161 AQYAAQLEQYSKAIDIYEQVARSSLDNN  188 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            3334566778888888887776544433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=80.88  E-value=13  Score=32.25  Aligned_cols=54  Identities=22%  Similarity=0.203  Sum_probs=26.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDM  287 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  287 (542)
                      ++.+.+.+.+++++...++-++..+    .+......+++.+|-.|++++|..-++-.
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkakP----tda~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAKP----TDAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCC----ccccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            3444445555555555555555444    44444444555555555555554444433

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.87  E-value=32  Score=31.24  Aligned_cols=24  Identities=17%  Similarity=0.167  Sum_probs=18.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHh
Q 009143          480 TELIKGHCARGNMKEAEEVFAKIQ  503 (542)
Q Consensus       480 ~~li~~~~~~g~~~~A~~~~~~m~  503 (542)
                      .-++..+.+.|.+.+|..++..+.
T Consensus       129 ~Kli~l~y~~~~YsdalalIn~ll  152 (421)
T COG5159         129 CKLIYLLYKTGKYSDALALINPLL  152 (421)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHH
Confidence            467888999999999988766443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=80.82  E-value=45  Score=30.49  Aligned_cols=71  Identities=14%  Similarity=0.113  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCChhhH
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK-----TGVAPDQISY  369 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~  369 (542)
                      +++.....|..+|.+.+|.++.++.+..+ +.+...+-.++..+...|+--.+.+-++.+.+     .|+..+...+
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            45566678888999999999988888764 56777788888899999987777777666543     3665555443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=80.79  E-value=78  Score=33.22  Aligned_cols=418  Identities=15%  Similarity=0.106  Sum_probs=216.0

Q ss_pred             ChhhHHHHHHHHH-hcCChHHHHHHHHHHHhCCCCCChh-----hHHHHHHHHHHcCChhHHHHHHHHHhhCCC----CC
Q 009143          117 DYRRHVAVIRDLC-LGGKIGTALWLRRKMIQKGTVPDVL-----THNYLVNELCKIGDLEKADHVIREMSEMRP----SP  186 (542)
Q Consensus       117 ~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~g~~p~~~-----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~  186 (542)
                      +..++..+...+. ...+++.|...+.+....--.++..     ....++..+.+.+... |...+++..+.--    .+
T Consensus        58 ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~  136 (608)
T PF10345_consen   58 EARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSA  136 (608)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchh
Confidence            4457778888877 6799999999999876543223322     2245667777777666 8888887655221    12


Q ss_pred             CHHhHHHH-HHHHHHcCChhhHHHHHHHHHHCC---CCCChHHHHHHHHHHH--hcCChhHHHHHHHHHHhCC------C
Q 009143          187 NCATYNAF-ITGYCRVNELDKALHLFSTMANNG---IRPNRVTHNILVHALC--KKGLLGDAVKFLGEVLADD------D  254 (542)
Q Consensus       187 ~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~------~  254 (542)
                      -...|..+ +..+...+++..|.+.++.+...-   ..|-..++..++.+..  +.+..+++.+.++++....      +
T Consensus       137 w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~  216 (608)
T PF10345_consen  137 WYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDP  216 (608)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCC
Confidence            23344444 333334479999999998886542   2333445555555444  4565677777777663311      1


Q ss_pred             CCCCCcHHHHHHHHHHHH--hcCCHHHHHHHHHHHHH-------CC-CC----------------------CCHHH----
Q 009143          255 GKATSDVITSTILMDSYF--KNGDKFQALALWNDMFQ-------KN-IQ----------------------TDIVA----  298 (542)
Q Consensus       255 ~~~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~-------~~-~~----------------------~~~~~----  298 (542)
                      ....|...+|..+++.++  ..|+++.+...++++.+       .. .+                      +....    
T Consensus       217 ~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~~~~w~~~~~d~~i~l~~~~~~~~~~~~~~~f~wl~~  296 (608)
T PF10345_consen  217 SVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKKSPSWPSWDEDGSIPLNIGEGSSNSGGTPLVFSWLPK  296 (608)
T ss_pred             CCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCccCCCcCCCeeEEeecccccccCCCceeEEeecCH
Confidence            112356677877777665  46776676666555432       10 00                      11111    


Q ss_pred             -----HHHHHH--HHHhCCCHHHHHHHHHHHHHc--------CCCCC--------HHHHHHHHH---------HHHhcCC
Q 009143          299 -----YNVLIN--GFCLNGDISSAFAYFCQMLKR--------GFLPD--------VITYNTLLN---------CLCKQGK  346 (542)
Q Consensus       299 -----~~~li~--~~~~~~~~~~A~~~~~~~~~~--------~~~p~--------~~~~~~li~---------~~~~~g~  346 (542)
                           +.-++.  ..+..+..+.|.+++++..+.        ...+.        ...|...+.         ..+-.++
T Consensus       297 ~~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~~~~~~~~sl~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~  376 (608)
T PF10345_consen  297 EELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIKSPSAPSESLSEASERIQWLRYLQCYLLFYQIWCNFIRGD  376 (608)
T ss_pred             HHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhccCCCCCCcCHHHHHHhHHHHHHHHHHHHHHHHHHHHHCcC
Confidence                 111222  223345444555555543321        11111        011211111         2234688


Q ss_pred             HHHHHHHHHHHHHCCC-CCC-----hhhHHHHHHH--HHhcCCHHHHHHHHH--------HHHhCCCCCCHHHHHHHH--
Q 009143          347 LDEASHFYGVLSKTGV-APD-----QISYKTIIQG--LCIHGDIVKAREFLL--------SMLEKSVVPEPHIWNVII--  408 (542)
Q Consensus       347 ~~~A~~~~~~~~~~~~-~~~-----~~~~~~li~~--~~~~g~~~~A~~~~~--------~~~~~~~~~~~~~~~~li--  408 (542)
                      +..|...+..+.+... .|+     ...+...+.+  +...|+.+.|...|.        .....+...+...+..+=  
T Consensus       377 ~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila~LNl~  456 (608)
T PF10345_consen  377 WSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILAALNLA  456 (608)
T ss_pred             HHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHHHHHHH
Confidence            9999999988876421 111     2233333332  335799999999998        444455544444443321  


Q ss_pred             HHHH--hcCChHH--HHHHHHHHHhC-CCCC--CHHHHHHHH-HHhhcccccccCChHHHHHHHHHHHh-C--CCCCC--
Q 009143          409 DGYG--RCGDLSN--AFSIRDLMLSF-GVSS--NVFTFNALI-LAETRGASCNLGHIHLALQLYDEMLR-R--GITPD--  475 (542)
Q Consensus       409 ~~~~--~~g~~~~--A~~~~~~m~~~-~~~p--~~~~~~~ll-~~~~~~~~~~~g~~~~A~~~~~~~~~-~--g~~p~--  475 (542)
                      -.+.  .....++  +.++++.+... .-.|  +..++..++ .++.   ....-...++...+.+..+ .  ....+  
T Consensus       457 ~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~ne~k~~l~~~L~~~~~~~~n~~l  533 (608)
T PF10345_consen  457 IILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYN---TFEPFSSNEAKRHLQEALKMANNKLGNSQL  533 (608)
T ss_pred             HHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHh---hCCccccHHHHHHHHHHHHHHHHhhccchH
Confidence            1122  2222333  66777766542 1122  334444443 2211   1111222344444443332 1  11111  


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCC-C--ChhHHHH-----HHHHHHhcCChhHHHHHHHHHhh
Q 009143          476 -IITYTELIKGHCARGNMKEAEEVFAKIQTLGLA-I--DHIPFRI-----LKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       476 -~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-~--~~~~~~~-----l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                       ..+++.|...+. .|+..+..+..........+ |  ....|..     +.+.+...|+.++|.+...+.-.
T Consensus       534 ~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~~  605 (608)
T PF10345_consen  534 LAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLDR  605 (608)
T ss_pred             HHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence             123343444444 78888866666554331111 2  3445533     33447788999999998887643

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>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=80.78  E-value=31  Score=29.03  Aligned_cols=76  Identities=12%  Similarity=0.027  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----------ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccc
Q 009143          383 VKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCG-----------DLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGAS  451 (542)
Q Consensus       383 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----------~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  451 (542)
                      ++|+.-|++.+..++. ...++..+..+|...+           -+++|.+.|+...+  ..|+...|+.-+..      
T Consensus        52 edAisK~eeAL~I~P~-~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~------  122 (186)
T PF06552_consen   52 EDAISKFEEALKINPN-KHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEM------  122 (186)
T ss_dssp             HHHHHHHHHHHHH-TT--HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHH------
T ss_pred             HHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHH------
Confidence            3444444455544433 3456666666665433           24555556666555  47888888877754      


Q ss_pred             cccCChHHHHHHHHHHHhCCC
Q 009143          452 CNLGHIHLALQLYDEMLRRGI  472 (542)
Q Consensus       452 ~~~g~~~~A~~~~~~~~~~g~  472 (542)
                           ..+|-++..++.+.+.
T Consensus       123 -----~~kap~lh~e~~~~~~  138 (186)
T PF06552_consen  123 -----AAKAPELHMEIHKQGL  138 (186)
T ss_dssp             -----HHTHHHHHHHHHHSSS
T ss_pred             -----HHhhHHHHHHHHHHHh
Confidence                 3456667777766543

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=80.02  E-value=22  Score=32.16  Aligned_cols=90  Identities=10%  Similarity=-0.021  Sum_probs=63.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-
Q 009143          335 NTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR-  413 (542)
Q Consensus       335 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-  413 (542)
                      ..=|.+++..+++.++....-.--+.--+..+.+....|-.|.+.+.+..+.++-..-+...-.-+...|.+++..|.. 
T Consensus        87 vvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~  166 (309)
T PF07163_consen   87 VVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLH  166 (309)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHH
Confidence            3347888999999998876654444322233456666777799999999888888877765333345558888777665 


Q ss_pred             ----cCChHHHHHHH
Q 009143          414 ----CGDLSNAFSIR  424 (542)
Q Consensus       414 ----~g~~~~A~~~~  424 (542)
                          .|.+++|+++.
T Consensus       167 VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  167 VLLPLGHFSEAEELV  181 (309)
T ss_pred             HHhccccHHHHHHHH
Confidence                69999998876

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

---

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	542
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	3e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 74.5 bits (181), Expect = 4e-14
 Identities = 23/190 (12%), Positives = 55/190 (28%), Gaps = 9/190 (4%)

Query: 141 RRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM---RPSPNCATYNAFITG 197
             +  Q                      L  A H++         R       YNA + G
Sbjct: 115 SGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLG 174

Query: 198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV-KFLGEVLADDDGK 256
           + R     + +++   + + G+ P+ +++   +  + ++      + + L +     +G 
Sbjct: 175 WARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ--MSQEGL 232

Query: 257 ATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQT-DIVAYNVLINGFCLNGDISSA 315
               + T+ +L  S        +A+      F    Q    V  + L+          S 
Sbjct: 233 KLQALFTAVLL--SEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSY 290

Query: 316 FAYFCQMLKR 325
                 +   
Sbjct: 291 PKLHLPLKTL 300

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 70.6 bits (171), Expect = 8e-13
 Identities = 27/230 (11%), Positives = 60/230 (26%), Gaps = 16/230 (6%)

Query: 321 QMLKRGFLPDVITYNTLLNCLCKQGKLDEASH---FYGVLSKTGVAPDQISYKTIIQGLC 377
           Q  +               C     +L  A H    +    +         Y  ++ G  
Sbjct: 117 QHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWA 176

Query: 378 IHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVF 437
             G   +    L  + +  + P+   +   +   GR    +    I   +     S    
Sbjct: 177 RQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGT--IERCLEQM--SQEGL 232

Query: 438 TFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEE 497
              AL  A           +    ++          P  +  ++L++   A+       +
Sbjct: 233 KLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPK 292

Query: 498 VFAKIQTLGLAID---------HIPFRILKKRYRRMKESDKARDIHQKWL 538
           +   ++TL    +          +    ++K     KE   AR   +   
Sbjct: 293 LHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLR 342

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 69.1 bits (167), Expect = 2e-12
 Identities = 26/177 (14%), Positives = 62/177 (35%), Gaps = 6/177 (3%)

Query: 123 AVIRDLCLGGKIGTA---LWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREM 179
           A  +   L  ++  A   L +     QK  +  +  +N ++    + G  ++  +V+  +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 180 SEMRPSPNCATYNAFITGYCRVNELDKAL-HLFSTMANNGIRPNRVTHNILVHALCKKGL 238
            +   +P+  +Y A +    R ++    +      M+  G++   +   +L+    +  +
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV 251

Query: 239 LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD 295
           L    K           +    V TS +L D Y K+G              + +   
Sbjct: 252 LKAVHKVKPTF--SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEK 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 = 69.1 bits (167), Expect = 2e-12
 Identities = 26/235 (11%), Positives = 55/235 (23%), Gaps = 37/235 (15%)

Query: 172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH 231
           A  +     +   SP        +        LD         +   +   +        
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN 291
                  L  A                                      L + +   QK 
Sbjct: 136 CCLLTDQLPLA-----------------------------------HHLLVVHHGQRQKR 160

Query: 292 IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA- 350
               +  YN ++ G+   G           +   G  PD+++Y   L C+ +Q +     
Sbjct: 161 KLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTI 220

Query: 351 SHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWN 405
                 +S+ G+    +    ++        ++KA   +           P +  
Sbjct: 221 ERCLEQMSQEGLKLQALFTAVLLSEEDRAT-VLKAVHKVKPTFSLPPQLPPPVNT 274

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 66.4 bits (160), Expect = 2e-11
 Identities = 25/244 (10%), Positives = 60/244 (24%), Gaps = 42/244 (17%)

Query: 165 KIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMAN---NGIRP 221
               L+       + S+ + S       AF       ++L  A HL              
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQAL 281
               +N ++    ++G   + V                                      
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVY------------------------------------- 186

Query: 282 ALWNDMFQKNIQTDIVAYNVLINGFCLNGDIS-SAFAYFCQMLKRGFLPDVITYNTLLNC 340
            +   +    +  D+++Y   +         + +      QM + G     +    LL+ 
Sbjct: 187 -VLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE 245

Query: 341 LCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPE 400
             +   L          S     P  ++   +++ +      V   +  L +     + E
Sbjct: 246 EDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

Query: 401 PHIW 404
             + 
Sbjct: 306 KQLH 309

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.5 bits (150), Expect = 2e-10
 Identities = 20/173 (11%), Positives = 55/173 (31%), Gaps = 7/173 (4%)

Query: 343 KQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLL---SMLEKSVVP 399
            +  LD      G  S+  ++  Q       +   +   +  A   L+      +K  + 
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 400 EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHL 459
              ++N ++ G+ R G       +  ++   G++ ++ ++ A +    R           
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA----GT 219

Query: 460 ALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHI 512
             +  ++M + G+    +    L+        +K   +V             +
Sbjct: 220 IERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPV 272

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 3e-08
 Identities = 16/118 (13%), Positives = 33/118 (27%), Gaps = 8/118 (6%)

Query: 416 DLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLA---LQLYDEMLRRGI 472
            L    +         +S       A               + LA   L ++    ++  
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKC-----CLLTDQLPLAHHLLVVHHGQRQKRK 161

Query: 473 TPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKA 530
              +  Y  ++ G   +G  KE   V   ++  GL  D + +    +   R  +    
Sbjct: 162 LLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGT 219

>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 = 58.3 bits (140), Expect = 5e-09
 Identities = 65/391 (16%), Positives = 123/391 (31%), Gaps = 118/391 (30%)

Query: 174 HVIREMSEMRPSPNCATYN--------AFITGY-CR-VNELDKALHLFSTMANNGI--RP 221
           H+  E  E +       Y         AF+  + C+ V ++ K++   S    + I    
Sbjct: 6   HMDFETGEHQ-----YQYKDILSVFEDAFVDNFDCKDVQDMPKSI--LSKEEIDHIIMSK 58

Query: 222 NRVTHN-ILVHALCKKGLLGDAVK-FLGEVLADDDG----KATSDVITSTILMDSYFKNG 275
           + V+    L   L  K    + V+ F+ EVL  +         ++    +++   Y +  
Sbjct: 59  DAVSGTLRLFWTLLSKQ--EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116

Query: 276 DKFQALALWND--MF--------------QKNIQTDIVAYNVLINGF------CLNGDIS 313
           D+     L+ND  +F              ++ +     A NVLI+G        +  D+ 
Sbjct: 117 DR-----LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171

Query: 314 SAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTII 373
            ++   C+M         I +  L NC   +  L+        +     +    S    +
Sbjct: 172 LSYKVQCKM------DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225

Query: 374 QGLCIHGDIVKAREFLLS-MLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGV 432
           +   IH    + R  L S   E  ++        ++       ++ NA +          
Sbjct: 226 R---IHSIQAELRRLLKSKPYENCLL--------VLL------NVQNAKAW--------- 259

Query: 433 SSNVFTFNALILAETRGAS-----CNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHC 487
             N F  +  IL  TR              H++L    +     +TPD            
Sbjct: 260 --NAFNLSCKILLTTRFKQVTDFLSAATTTHISL----DHHSMTLTPD------------ 301

Query: 488 ARGNMKEAEEVFAKIQTLGLAIDHIPFRILK 518
                 E + +  K   L      +P  +L 
Sbjct: 302 ------EVKSLLLKY--LDCRPQDLPREVLT 324

>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 = 56.0 bits (134), Expect = 2e-08
 Identities = 71/550 (12%), Positives = 154/550 (28%), Gaps = 187/550 (34%)

Query: 54  NDIMS-----YVGD-QCRS---KTRHWFSNKDSD---NEGNP-QAVFNALDLILKENLDR 100
            DI+S     +V +  C+      +   S ++ D      +           +L +  + 
Sbjct: 19  KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78

Query: 101 LKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYL- 159
           ++       V   L  +Y+                   +L   +  +   P ++T  Y+ 
Sbjct: 79  VQKF-----VEEVLRINYK-------------------FLMSPIKTEQRQPSMMTRMYIE 114

Query: 160 -VNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNG 218
             + L     +    +V R   +                     +L +AL          
Sbjct: 115 QRDRLYNDNQVFAKYNVSRL--QP------------------YLKLRQALL--------E 146

Query: 219 IRPNRVTHNILVHALCKKGLLGDAVKFL-GEVLADDD--------------GKATSDVIT 263
           +RP +   N+L+      G+LG    ++  +V                       S    
Sbjct: 147 LRPAK---NVLID-----GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV 198

Query: 264 STILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF--------CL------- 308
             +L    ++    + + +        NI+  I +    +           CL       
Sbjct: 199 LEMLQKLLYQIDPNWTSRSD----HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254

Query: 309 NGDISSAFAYFCQMLKRGFLPDVIT-YNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQI 367
           N    +AF   C++L       + T +  + + L         +H         + PD++
Sbjct: 255 NAKAWNAFNLSCKIL-------LTTRFKQVTDFL----SAATTTHISLDHHSMTLTPDEV 303

Query: 368 SYKTIIQGLCIHGDIVKARE-------FLLSMLEKSVVPEPHIWNVIIDGYGR--CGDLS 418
             K+++    +                  LS++ +S+      W    D +    C  L+
Sbjct: 304 --KSLL-LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW----DNWKHVNCDKLT 356

Query: 419 NAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPD--- 475
                              + N L  AE R             +++D +    + P    
Sbjct: 357 TIIES--------------SLNVLEPAEYR-------------KMFDRL---SVFPPSAH 386

Query: 476 I------ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAI-DHIPFRI-LKKRYRRMK-E 526
           I      + + ++IK         +   V  K+    L         I +   Y  +K +
Sbjct: 387 IPTILLSLIWFDVIK--------SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438

Query: 527 SDKARDIHQK 536
            +    +H+ 
Sbjct: 439 LENEYALHRS 448

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 45.6 bits (108), Expect = 3e-05
 Identities = 26/208 (12%), Positives = 73/208 (35%), Gaps = 13/208 (6%)

Query: 151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN--ELDKAL 208
            +             + + ++A    +E   +        ++  ++ +      E D  L
Sbjct: 198 LEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVL 256

Query: 209 HL-FSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTIL 267
            L +ST +       R  + + ++    +  L  A  +L  +   +    +SD++     
Sbjct: 257 KLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEK---SSDLLLC--K 311

Query: 268 MDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF 327
            D+ F        LA+   + + +   ++  Y + +     +G+ +  +     ++ R  
Sbjct: 312 ADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH- 369

Query: 328 LPD-VITYNTLLNCLCKQGKLDEASHFY 354
            P+  +T+  +        K+ EA  ++
Sbjct: 370 -PEKAVTWLAVGIYYLCVNKISEARRYF 396

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	542
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	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.87
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.85
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.83
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.75
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.75
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.74
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.73
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.72
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.71
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.69
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.68
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.65
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.64
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.64
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.64
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.63
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.62
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.62
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.62
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.61
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.56
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.55
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.54
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.5
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.49
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.47
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.45
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.41
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.4
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.4
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.36
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.36
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.34
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.34
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.26
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.24
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.23
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.19
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.18
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.17
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.12
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.12
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.09
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.08
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.08
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.08
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.06
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.03
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.02
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.02
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.02
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.01
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.0
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.0
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.0
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.99
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.99
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.97
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.95
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.95
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.92
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.92
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.9
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.85
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.81
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.79
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.77
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.76
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.75
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.74
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.72
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.7
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.69
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.69
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.68
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.67
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.67
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.66
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.65
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.64
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.64
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.63
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.63
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.63
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.63
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.63
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.62
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.62
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.61
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.61
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.58
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.58
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.56
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.56
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.54
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.53
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.51
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.5
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.49
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.47
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.46
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.45
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.42
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.42
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.41
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.39
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.38
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.38
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.37
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.36
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.35
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.33
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.32
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.31
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.3
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.29
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.28
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.26
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.19
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.16
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.16
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.13
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.12
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.11
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.1
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.1
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.09
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.07
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.06
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.03
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.03
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.0
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.96
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.96
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.94
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.9
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.84
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.82
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.79
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.77
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.76
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.7
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.68
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.63
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.59
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.57
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.56
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.48
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.36
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.23
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.19
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.02
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.0
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.92
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.83
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.82
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.76
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.73
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.7
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.66
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.56
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.55
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.44
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.27
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.23
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.19
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.1
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.0
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.71
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.69
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.36
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.8
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.73
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.55
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.52
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.2
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.16
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.03
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.58
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	93.3
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.89
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.81
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.81
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.69
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.54
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.53
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.09
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.59
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.65
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.69
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.01
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.96
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	86.23
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.89
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	85.69
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.29
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.11
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	84.51
2p58_C	116	Putative type III secretion protein YSCG; type III	83.22
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	83.16
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.28
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	81.95
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	81.94
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	81.59

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.4e-37  Score=319.24  Aligned_cols=424  Identities=12%  Similarity=0.053  Sum_probs=364.1

Q ss_pred             hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHH
Q 009143           96 ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHV  175 (542)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  175 (542)
                      +.++.+...++.+.   +..|+..++..++.+|.+.|++++|+.+|+.+...  .++..+++.++.+|.+.|++++|.++
T Consensus        98 g~~~~A~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  172 (597)
T 2xpi_A           98 QQYKCAAFVGEKVL---DITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNL  172 (597)
T ss_dssp             TCHHHHHHHHHHHH---HHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCchHHHHHHHHHH---hhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHH
Confidence            44555555555543   44678889999999999999999999999988653  67889999999999999999999999


Q ss_pred             HHHHhhCC---------------CCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHH-----------
Q 009143          176 IREMSEMR---------------PSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNIL-----------  229 (542)
Q Consensus       176 ~~~~~~~~---------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-----------  229 (542)
                      |+++....               ..++..+|+.++.+|.+.|++++|+++|++|.+.+. .+...+..+           
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~  251 (597)
T 2xpi_A          173 LGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDA-KCYEAFDQLVSNHLLTADEE  251 (597)
T ss_dssp             HCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHTTCSCHHHH
T ss_pred             HhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-hhhHHHHHHHHhhcccchhH
Confidence            98543211               123578999999999999999999999999988642 133333332           


Q ss_pred             ---------------------------HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 009143          230 ---------------------------VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA  282 (542)
Q Consensus       230 ---------------------------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  282 (542)
                                                 +..|.+.|++++|.++|+++.+. +    ++..+++.++.+|.+.|++++|.+
T Consensus       252 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-~----~~~~~~~~l~~~~~~~g~~~~A~~  326 (597)
T 2xpi_A          252 WDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL-E----KSSDLLLCKADTLFVRSRFIDVLA  326 (597)
T ss_dssp             HHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG-G----GCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC-C----chHHHHHHHHHHHHHhcCHHHHHH
Confidence                                       44556778999999999998765 2    789999999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 009143          283 LWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV  362 (542)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  362 (542)
                      +|+++.+.+ +.+..++..++.++.+.|++++|.++++++.+.. +.+..++..++..|.+.|++++|.++|+++.+.. 
T Consensus       327 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  403 (597)
T 2xpi_A          327 ITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-  403 (597)
T ss_dssp             HHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-
Confidence            999999876 5588899999999999999999999999998763 5578899999999999999999999999998853 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 009143          363 APDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNAL  442 (542)
Q Consensus       363 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  442 (542)
                      +.+..+|+.++.+|.+.|++++|.++|+++.+.++. +..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.+
T Consensus       404 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  481 (597)
T 2xpi_A          404 PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNEL  481 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            346789999999999999999999999999987654 88999999999999999999999999998853 3467888888


Q ss_pred             HHHhhcccccccCChHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHH
Q 009143          443 ILAETRGASCNLGHIHLALQLYDEMLRR----GITPD--IITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRI  516 (542)
Q Consensus       443 l~~~~~~~~~~~g~~~~A~~~~~~~~~~----g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  516 (542)
                      ...     +.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+..+|..
T Consensus       482 ~~~-----~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~  555 (597)
T 2xpi_A          482 GVV-----AFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTA  555 (597)
T ss_dssp             HHH-----HHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHH
T ss_pred             HHH-----HHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHH
Confidence            887     77889999999999999875    66788  7899999999999999999999999999875 348899999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          517 LKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       517 l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      +..+|.+.|++++|.++|+++++.+
T Consensus       556 l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          556 IALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999998754

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.1e-35  Score=302.94  Aligned_cols=405  Identities=14%  Similarity=0.071  Sum_probs=350.8

Q ss_pred             hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC---------------CCCCChhhHHHHH
Q 009143           96 ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQK---------------GTVPDVLTHNYLV  160 (542)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---------------g~~p~~~~~~~li  160 (542)
                      +..+.+...++...   ..++++.+++.++..|.+.|++++|+.+|+++...               |..++..+|+.++
T Consensus       131 g~~~~A~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  207 (597)
T 2xpi_A          131 GDYARAKCLLTKED---LYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRG  207 (597)
T ss_dssp             TCHHHHHHHHHHTC---GGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHh---ccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHH
Confidence            45666667776654   45789999999999999999999999999953322               2234588999999


Q ss_pred             HHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHH--------------------------------------HHHHHHcC
Q 009143          161 NELCKIGDLEKADHVIREMSEMRPSPNCATYNAF--------------------------------------ITGYCRVN  202 (542)
Q Consensus       161 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l--------------------------------------i~~~~~~g  202 (542)
                      .+|.+.|++++|.++|+++.+.++. +...+..+                                      +..|.+.|
T Consensus       208 ~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g  286 (597)
T 2xpi_A          208 QVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHED  286 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcc
Confidence            9999999999999999999987653 34443333                                      55566789


Q ss_pred             ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 009143          203 ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA  282 (542)
Q Consensus       203 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  282 (542)
                      ++++|.++|+++.+.  +++..++..++.+|.+.|++++|.++|+++.+.++    .+..+++.++.++.+.|++++|.+
T Consensus       287 ~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~  360 (597)
T 2xpi_A          287 ELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP----YNLDVYPLHLASLHESGEKNKLYL  360 (597)
T ss_dssp             HHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCCTTHHHHHHHHHHHTCHHHHHH
T ss_pred             hHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc----ccHHHHHHHHHHHHHhCCHHHHHH
Confidence            999999999999865  58999999999999999999999999999998776    678899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 009143          283 LWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV  362 (542)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  362 (542)
                      +++++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ 
T Consensus       361 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  437 (597)
T 2xpi_A          361 ISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-  437 (597)
T ss_dssp             HHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            999998765 6789999999999999999999999999998863 4468899999999999999999999999999864 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC--H
Q 009143          363 APDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF----GVSSN--V  436 (542)
Q Consensus       363 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~--~  436 (542)
                      +.+..++..++.+|.+.|++++|.++|+++.+..+. +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  .
T Consensus       438 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~  516 (597)
T 2xpi_A          438 QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWA  516 (597)
T ss_dssp             TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGH
T ss_pred             ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHH
Confidence            457889999999999999999999999999987654 8899999999999999999999999999875    66787  7


Q ss_pred             HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHH
Q 009143          437 FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRI  516 (542)
Q Consensus       437 ~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  516 (542)
                      .+|..+..+     +.+.|++++|.+.++++.+.+ +.+..+|..++.+|.+.|++++|.+.++++.+... .+...+..
T Consensus       517 ~~~~~l~~~-----~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~  589 (597)
T 2xpi_A          517 ATWANLGHA-----YRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISP-NEIMASDL  589 (597)
T ss_dssp             HHHHHHHHH-----HHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             HHHHHHHHH-----HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC-CChHHHHH
Confidence            889999887     778899999999999999864 34789999999999999999999999999999743 35666666


Q ss_pred             HHHHH
Q 009143          517 LKKRY  521 (542)
Q Consensus       517 l~~~~  521 (542)
                      +..+|
T Consensus       590 l~~~~  594 (597)
T 2xpi_A          590 LKRAL  594 (597)
T ss_dssp             HHHTT
T ss_pred             HHHHH
Confidence            66554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=1.7e-28  Score=239.72  Aligned_cols=384  Identities=15%  Similarity=0.069  Sum_probs=333.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC
Q 009143          124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE  203 (542)
Q Consensus       124 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  203 (542)
                      +...+.+.|++++|+..++.+.+.. +.+...+..+...+.+.|++++|...++...+..| .+..+|..+...+.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p-~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCC
Confidence            4556788999999999999998863 33566778888889999999999999999988765 578899999999999999


Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALAL  283 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  283 (542)
                      +++|++.|+++.+.. +.+..+|..+..++.+.|++++|.+.++++++..+    .+...+..+...+...|++++|.+.
T Consensus        83 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~  157 (388)
T 1w3b_A           83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP----DLYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT----TCTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHccCHHHHHHH
Confidence            999999999998753 33566899999999999999999999999999876    7778899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 009143          284 WNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA  363 (542)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  363 (542)
                      |+++.+.. +.+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...+.+..+.. +
T Consensus       158 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p  234 (388)
T 1w3b_A          158 YLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-P  234 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-T
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-c
Confidence            99999875 5678899999999999999999999999999874 4457788999999999999999999999988864 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALI  443 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  443 (542)
                      .+..++..+...+.+.|++++|.+.++++.+.++. +..+|..+..++.+.|++++|...|+++.+.. +.+..++..+.
T Consensus       235 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  312 (388)
T 1w3b_A          235 NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLA  312 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            35788999999999999999999999999997654 78899999999999999999999999998853 45667777777


Q ss_pred             HHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHh
Q 009143          444 LAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRR  523 (542)
Q Consensus       444 ~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~  523 (542)
                      ..     +...|++++|.+.++++.+.. +.+..++..++.+|.+.|++++|...++++.+..+ .+...|..+...+..
T Consensus       313 ~~-----~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~a~~~lg~~~~~  385 (388)
T 1w3b_A          313 NI-----KREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGNTLKE  385 (388)
T ss_dssp             HH-----HHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHH
T ss_pred             HH-----HHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHhHHHHHHH
Confidence            66     778899999999999999852 34578899999999999999999999999998632 356777888877776


Q ss_pred             cCC
Q 009143          524 MKE  526 (542)
Q Consensus       524 ~g~  526 (542)
                      .|+
T Consensus       386 ~~~  388 (388)
T 1w3b_A          386 MQD  388 (388)
T ss_dssp             TCC
T ss_pred             ccC
Confidence            653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=6.3e-28  Score=235.65  Aligned_cols=365  Identities=15%  Similarity=0.066  Sum_probs=320.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 009143          159 LVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGL  238 (542)
Q Consensus       159 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  238 (542)
                      +...+.+.|++++|.+.++.+.+..| .+...+..+...+.+.|++++|...++...+. .+.+..+|..+...+.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~-~p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ-NPLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHCCC
Confidence            45667889999999999999988765 36777888889999999999999999998875 35578899999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Q 009143          239 LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAY  318 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  318 (542)
                      +++|.+.|++++...+    .+..+|..++.++.+.|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.
T Consensus        83 ~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  157 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKP----DFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCc----chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHH
Confidence            9999999999999776    778899999999999999999999999999875 45567788899999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 009143          319 FCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV  398 (542)
Q Consensus       319 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  398 (542)
                      |+++.+.. +.+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...+++..+..+.
T Consensus       158 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~  235 (388)
T 1w3b_A          158 YLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN  235 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            99999873 4457889999999999999999999999999864 345778899999999999999999999999987654


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHH
Q 009143          399 PEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIIT  478 (542)
Q Consensus       399 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  478 (542)
                       +..++..+..++.+.|++++|...|+++.+.. +.+..+|..+...     +.+.|++++|.+.++++.+.. +.+..+
T Consensus       236 -~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~-----~~~~g~~~~A~~~~~~al~~~-p~~~~~  307 (388)
T 1w3b_A          236 -HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANA-----LKEKGSVAEAEDCYNTALRLC-PTHADS  307 (388)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHH-----HHHHSCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH-----HHHcCCHHHHHHHHHHHHhhC-cccHHH
Confidence             78899999999999999999999999999853 2235567666665     678899999999999999863 457789


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          479 YTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       479 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      +..++..+...|++++|...++++.+.. +.+..++..+...|.+.|++++|.+.|+++++.+
T Consensus       308 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          308 LNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            9999999999999999999999998863 3467889999999999999999999999998754

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=1.7e-30  Score=258.20  Aligned_cols=205  Identities=15%  Similarity=0.147  Sum_probs=120.4

Q ss_pred             HHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---------HH
Q 009143          279 QALALWNDMFQKNIQTDI-VAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGK---------LD  348 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---------~~  348 (542)
                      .+..+.+++.+.+..+.+ ..++.+|++|++.|++++|+++|++|.+.|+.||..||+.||.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            344555566555544443 34666777777777777777777777777777777777777777766543         45


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 009143          349 EASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLML  428 (542)
Q Consensus       349 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (542)
                      +|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            56666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             hCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 009143          429 SFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCA  488 (542)
Q Consensus       429 ~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~  488 (542)
                      +.|+.||..||+++|.+     +++.|++++|.+++++|.+.|..|+..||+.++..|+.
T Consensus       168 ~~G~~Pd~~ty~~Li~~-----~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          168 ESEVVPEEPELAALLKV-----SMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCCCCHHHHHHHHHH-----HHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hcCCCCCHHHHHHHHHH-----HhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            66666666666666655     45556666666666666665566666666665555544

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=1.9e-30  Score=257.88  Aligned_cols=205  Identities=20%  Similarity=0.228  Sum_probs=180.9

Q ss_pred             hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC--------
Q 009143          240 GDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD--------  311 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~--------  311 (542)
                      ..+..+.+++.+.+...  .....++.+|++|++.|++++|+++|++|.+.|+.||..+|++||.+|++.+.        
T Consensus         7 s~~e~L~~~~~~k~~~~--spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~   84 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQ--SPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNP   84 (501)
T ss_dssp             -------------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCH
T ss_pred             chHHHHHHHHHHhcccC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcc
Confidence            34556666676665522  34456888999999999999999999999999999999999999999987764        


Q ss_pred             -HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 009143          312 -ISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLL  390 (542)
Q Consensus       312 -~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  390 (542)
                       .++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+
T Consensus        85 ~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           85 GLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence             6889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHh
Q 009143          391 SMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAE  446 (542)
Q Consensus       391 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  446 (542)
                      +|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|..|+..||+.++..+
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F  220 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWF  220 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999874

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=8.5e-25  Score=221.74  Aligned_cols=409  Identities=11%  Similarity=-0.014  Sum_probs=300.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      ...|......+.+.|++++|+..|+++++..  |+..++..+..+|.+.|++++|.+.++++.+..| .+..+|..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHH
Confidence            4467788889999999999999999999874  7899999999999999999999999999998776 477899999999


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHH----------------------------
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEV----------------------------  249 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~----------------------------  249 (542)
                      +.+.|++++|...|+++...+ +++......++..+........+.+.+..+                            
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            999999999999999998875 334444444443333322222221111100                            


Q ss_pred             ------HhCCCCC-------CCCcHHHHHHHHHHHHh---cCCHHHHHHHHHHHHH-----CCC--------CCCHHHHH
Q 009143          250 ------LADDDGK-------ATSDVITSTILMDSYFK---NGDKFQALALWNDMFQ-----KNI--------QTDIVAYN  300 (542)
Q Consensus       250 ------~~~~~~~-------~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~-----~~~--------~~~~~~~~  300 (542)
                            .......       .+.+...+..+...+..   .|++++|...++++.+     ...        +.+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                  0000000       01225555555555554   7888888888888877     310        23456777


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 009143          301 VLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG  380 (542)
Q Consensus       301 ~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  380 (542)
                      .+...+...|++++|...|+++.+..  |+...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhC
Confidence            88888888888888888888888764  337778888888888888888888888887753 345667888888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHH
Q 009143          381 DIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLA  460 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A  460 (542)
                      ++++|...++++.+..+. +...+..+...+...|++++|...++++.+.. +.+...+..+...     +...|++++|
T Consensus       319 ~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~-----~~~~~~~~~A  391 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEI-----LTDKNDFDKA  391 (514)
T ss_dssp             CTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHH-----HHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHH-----HHHCCCHHHH
Confidence            888888888888877654 67788888888888888888888888887742 1233444444443     6677888888


Q ss_pred             HHHHHHHHhCCC-CCC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHH
Q 009143          461 LQLYDEMLRRGI-TPD----IITYTELIKGHCA---RGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARD  532 (542)
Q Consensus       461 ~~~~~~~~~~g~-~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~  532 (542)
                      ...++++.+... .++    ...|..++..+..   .|++++|...++++.+... .+...+..+...|.+.|++++|.+
T Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~  470 (514)
T 2gw1_A          392 LKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDP-RSEQAKIGLAQMKLQQEDIDEAIT  470 (514)
T ss_dssp             HHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhcCHHHHHH
Confidence            888888876311 112    3378888888888   8888888888888887642 366777888888888888888888


Q ss_pred             HHHHHhhcC
Q 009143          533 IHQKWLLRN  541 (542)
Q Consensus       533 ~~~~~l~~~  541 (542)
                      .|+++++.+
T Consensus       471 ~~~~a~~~~  479 (514)
T 2gw1_A          471 LFEESADLA  479 (514)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhc
Confidence            888887654

>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=99.94  E-value=2.2e-23  Score=207.60  Aligned_cols=307  Identities=14%  Similarity=0.119  Sum_probs=263.3

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .++..|..+...+.+.|++++|+.+|+++++.. +.+..++..++..|...|++++|.+.|+++.+.++ .+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHH
Confidence            567789999999999999999999999999863 44788999999999999999999999999998776 4688999999


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCCh----HHHHHH------------HHHHHhcCChhHHHHHHHHHHhCCCCCCCC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNR----VTHNIL------------VHALCKKGLLGDAVKFLGEVLADDDGKATS  259 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~l------------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  259 (542)
                      .+|.+.|++++|.+.|+++.+..  |+.    ..+..+            ...+...|++++|.+.++++++..+    .
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~----~  175 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV----W  175 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----T
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----C
Confidence            99999999999999999998753  443    455544            4458899999999999999998776    7


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH--
Q 009143          260 DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTL--  337 (542)
Q Consensus       260 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l--  337 (542)
                      +..++..++.+|.+.|++++|.+.|+++.+.. +.+..+|..++..+...|++++|+..|+++.+.. +.+...+..+  
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~  253 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQ  253 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHH
Confidence            88999999999999999999999999998765 5678999999999999999999999999998763 2334444444  


Q ss_pred             ----------HHHHHhcCCHHHHHHHHHHHHHCCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 009143          338 ----------LNCLCKQGKLDEASHFYGVLSKTGVAPD-----QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPH  402 (542)
Q Consensus       338 ----------i~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  402 (542)
                                ...+.+.|++++|...|+.+.+..  |+     ...+..+...+.+.|++++|...++++.+..+. +..
T Consensus       254 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~  330 (450)
T 2y4t_A          254 VKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPD-NVN  330 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHH
Confidence                      788899999999999999998853  44     347788888999999999999999999876543 788


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 009143          403 IWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVF  437 (542)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  437 (542)
                      .|..+..+|...|++++|...|+++.+.  .|+..
T Consensus       331 ~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~  363 (450)
T 2y4t_A          331 ALKDRAEAYLIEEMYDEAIQDYETAQEH--NENDQ  363 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcchH
Confidence            9999999999999999999999999884  55543

>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=99.94  E-value=4.4e-23  Score=205.44  Aligned_cols=317  Identities=16%  Similarity=0.098  Sum_probs=176.5

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHH
Q 009143          136 TALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMA  215 (542)
Q Consensus       136 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  215 (542)
                      .+...+.++.... +.+...+..++..+.+.|++++|.++|+++.+..+ .+..+|..+..++...|++++|...|+++.
T Consensus        10 ~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   87 (450)
T 2y4t_A           10 GVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVI   87 (450)
T ss_dssp             --------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3444455554432 33566777777788888888888888888776554 367777777888888888888888888877


Q ss_pred             HCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH---HHHHHHHHH------------HHhcCCHHHH
Q 009143          216 NNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDV---ITSTILMDS------------YFKNGDKFQA  280 (542)
Q Consensus       216 ~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~~~~l~~~------------~~~~g~~~~a  280 (542)
                      +.+ +.+..++..+...+.+.|++++|.+.++++++..+    .+.   ..+..++..            +.+.|++++|
T Consensus        88 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A  162 (450)
T 2y4t_A           88 QLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP----SENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAA  162 (450)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             hcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC----CChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            653 33566777777778888888888888888877665    555   666666443            5566666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          281 LALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      ...++++.+.. +.+..++..++.++.+.|++++|++.|+++.+.. +.+..++..+...|...|++++|...++.+.+.
T Consensus       163 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  240 (450)
T 2y4t_A          163 IAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  240 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66666665543 3455556666666666666666666666665542 334555666666666666666666666665543


Q ss_pred             CCCCChhhHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHH
Q 009143          361 GVAPDQISYKTI------------IQGLCIHGDIVKAREFLLSMLEKSVVPE----PHIWNVIIDGYGRCGDLSNAFSIR  424 (542)
Q Consensus       361 ~~~~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~  424 (542)
                      . +.+...+..+            ...+.+.|++++|...++++.+..+. +    ...|..+..++.+.|++++|...+
T Consensus       241 ~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  318 (450)
T 2y4t_A          241 D-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEAIRVC  318 (450)
T ss_dssp             C-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             C-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            2 1122222222            34444445555555555554443221 1    223444444444445555555444


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHh
Q 009143          425 DLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLR  469 (542)
Q Consensus       425 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~  469 (542)
                      +++.+.. +.+...|..+..+     +...|++++|...++++.+
T Consensus       319 ~~a~~~~-p~~~~~~~~l~~~-----~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          319 SEVLQME-PDNVNALKDRAEA-----YLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHH-----HHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhC-cccHHHHHHHHHH-----HHHhcCHHHHHHHHHHHHH
Confidence            4444421 1123333333333     3344444444444444444

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.93  E-value=1.4e-22  Score=206.61  Aligned_cols=406  Identities=14%  Similarity=0.056  Sum_probs=307.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      ....|..+...+.+.|++++|+..|+++++.. +.++.++..+..+|.+.|++++|.+.++++.+..| .+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHH
Confidence            34578888999999999999999999999874 34788999999999999999999999999998776 47889999999


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC---CCCcHH-----------
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK---ATSDVI-----------  262 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~-----------  262 (542)
                      ++...|++++|...|+.+..   .|+..  ...+..+...+....|...+++++...+..   ..++..           
T Consensus       102 ~~~~~g~~~~A~~~~~~~~~---~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVLSL---NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHHcCCHHHHHHHHHHHhc---CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            99999999999999974422   23321  222334445555677888888776542100   001111           


Q ss_pred             -------------------HHHHHHHHHH--------hcCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHHHh
Q 009143          263 -------------------TSTILMDSYF--------KNGDKFQALALWNDMFQKNIQTD-------IVAYNVLINGFCL  308 (542)
Q Consensus       263 -------------------~~~~l~~~~~--------~~g~~~~a~~~~~~~~~~~~~~~-------~~~~~~li~~~~~  308 (542)
                                         ....+...+.        ..|++++|..+++++.+.. +.+       ..++..+...+..
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~  255 (537)
T 3fp2_A          177 HLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFL  255 (537)
T ss_dssp             HHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHh
Confidence                               2222222222        2257899999999998764 333       3357777788899


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 009143          309 NGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREF  388 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  388 (542)
                      .|++++|...|+++.+.  .|+...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...
T Consensus       256 ~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  332 (537)
T 3fp2_A          256 KNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKED  332 (537)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            99999999999999987  5668888889999999999999999999998864 34678899999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHH
Q 009143          389 LLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEML  468 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~  468 (542)
                      ++++.+..+. +...+..+...+...|++++|...++++.+.. +.+...+..+...     +...|++++|.+.++++.
T Consensus       333 ~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~-----~~~~g~~~~A~~~~~~a~  405 (537)
T 3fp2_A          333 FQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEI-----LTDRGDFDTAIKQYDIAK  405 (537)
T ss_dssp             HHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH-----HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHH-----HHHhCCHHHHHHHHHHHH
Confidence            9999987654 67889999999999999999999999998853 2233455555444     678899999999999988


Q ss_pred             hCC-----CCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHH
Q 009143          469 RRG-----ITPDIITYTELIKGHCAR----------GNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDI  533 (542)
Q Consensus       469 ~~g-----~~p~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~  533 (542)
                      +..     .......+..+..++...          |++++|...++++.+... .+...+..+...|.+.|++++|.+.
T Consensus       406 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~  484 (537)
T 3fp2_A          406 RLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDP-RSEQAKIGLAQLKLQMEKIDEAIEL  484 (537)
T ss_dssp             HHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHH
Confidence            632     111223345556778888          999999999999998643 4678899999999999999999999


Q ss_pred             HHHHhhcC
Q 009143          534 HQKWLLRN  541 (542)
Q Consensus       534 ~~~~l~~~  541 (542)
                      |+++++.+
T Consensus       485 ~~~al~~~  492 (537)
T 3fp2_A          485 FEDSAILA  492 (537)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99997754

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=2.2e-22  Score=203.90  Aligned_cols=395  Identities=10%  Similarity=0.004  Sum_probs=305.6

Q ss_pred             hhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHH
Q 009143           96 ENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHV  175 (542)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  175 (542)
                      +.++.+...++...   ...|++.+|..+...+.+.|++++|+..++++++.. +.+..++..++.+|.+.|++++|...
T Consensus        20 g~~~~A~~~~~~al---~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~   95 (514)
T 2gw1_A           20 KKYDDAIKYYNWAL---ELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFD   95 (514)
T ss_dssp             SCHHHHHHHHHHHH---HHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHH---hcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            44455555554433   224788999999999999999999999999999874 34678899999999999999999999


Q ss_pred             HHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHH-----------------------------------HCCC-
Q 009143          176 IREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMA-----------------------------------NNGI-  219 (542)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----------------------------------~~g~-  219 (542)
                      |+++.+.++ ++......++..+........+.+.+..+.                                   .... 
T Consensus        96 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (514)
T 2gw1_A           96 LSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPE  174 (514)
T ss_dssp             HHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCC
T ss_pred             HHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHH
Confidence            999998776 344444444444443322222222221111                                   0000 


Q ss_pred             --------CCChHHHHHHHHHHHh---cCChhHHHHHHHHHHh-----C--CCCC---CCCcHHHHHHHHHHHHhcCCHH
Q 009143          220 --------RPNRVTHNILVHALCK---KGLLGDAVKFLGEVLA-----D--DDGK---ATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       220 --------~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~-----~--~~~~---~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                              +.+...+......+..   .|++++|...++++++     .  .+..   .+.+..++..++..+...|+++
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (514)
T 2gw1_A          175 LTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPL  254 (514)
T ss_dssp             CCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHH
Confidence                    1113444445554554   8999999999999988     4  2201   0145678899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      +|...++++.+..  |+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.
T Consensus       255 ~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  331 (514)
T 2gw1_A          255 GAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAK  331 (514)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9999999999875  338889999999999999999999999998874 4467789999999999999999999999998


Q ss_pred             HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC--
Q 009143          359 KTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGV-SSN--  435 (542)
Q Consensus       359 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~--  435 (542)
                      +.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...+.+.|++++|...++++.+... .++  
T Consensus       332 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  409 (514)
T 2gw1_A          332 ELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIY  409 (514)
T ss_dssp             HTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCS
T ss_pred             HhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHH
Confidence            864 335778888999999999999999999999987544 678899999999999999999999999887321 122  


Q ss_pred             --HHHHHHHHHHhhcccccc---cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcC
Q 009143          436 --VFTFNALILAETRGASCN---LGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       436 --~~~~~~ll~~~~~~~~~~---~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  506 (542)
                        ...+..+...     +..   .|++++|...++++.+.. +.+..++..+..+|.+.|++++|...++++.+..
T Consensus       410 ~~~~~~~~l~~~-----~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          410 VGIAPLVGKATL-----LTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             SCSHHHHHHHHH-----HHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH-----HhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence              2255555554     566   899999999999999853 3356888999999999999999999999999864

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=9.8e-20  Score=175.11  Aligned_cols=302  Identities=14%  Similarity=0.102  Sum_probs=230.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      |+..+..+...+.+.|++++|+..|+++++.. +.+..++..+...+...|++++|.+.++++.+..| .+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM-DFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CcchHHHHHHH
Confidence            45578888899999999999999999999864 34678899999999999999999999999988765 36788999999


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCC----ChHHHHHH------------HHHHHhcCChhHHHHHHHHHHhCCCCCCCCc
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRP----NRVTHNIL------------VHALCKKGLLGDAVKFLGEVLADDDGKATSD  260 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p----~~~~~~~l------------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  260 (542)
                      .+...|++++|...++++.+.  .|    +...+..+            ...+...|++++|.+.++++.+..+    .+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~----~~  153 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV----WD  153 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TC
T ss_pred             HHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC----Cc
Confidence            999999999999999999875  34    34444444            5777888888888888888888776    67


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHH-----
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYN-----  335 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~-----  335 (542)
                      ..++..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+.     
T Consensus       154 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~  231 (359)
T 3ieg_A          154 AELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQV  231 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHH
Confidence            7888888888888888888888888888765 5677888888888888888888888888888763 22233222     


Q ss_pred             -------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 009143          336 -------TLLNCLCKQGKLDEASHFYGVLSKTGVAPDQ----ISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIW  404 (542)
Q Consensus       336 -------~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  404 (542)
                             .+...+.+.|++++|...++.+.+.... +.    ..+..+...+...|++++|...+++..+..+. +...+
T Consensus       232 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  309 (359)
T 3ieg_A          232 KKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPD-NVNAL  309 (359)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-cHHHH
Confidence                   2245567777777777777777664321 22    12334556677777777777777777765433 66677


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          405 NVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      ..+...+...|++++|...|+++.+.
T Consensus       310 ~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          310 KDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            77777777777777777777777763

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=7.8e-20  Score=175.81  Aligned_cols=333  Identities=15%  Similarity=0.077  Sum_probs=203.8

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHA  232 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  232 (542)
                      +..+..+...+...|++++|.+.|+++.+..| .+..++..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   80 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHH
Confidence            44556666666666777777777766666544 245666666666666666666666666666542 2244556666666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  312 (542)
                      +...|++++|.+.++++.+..+ ....+...+..+...+.                       ...+..+...+...|++
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKSNP-SEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSCC-CHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHcCChHHHHHHHHHHHhcCC-cccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            6666666666666666665432 00012222222211000                       01112224556666666


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          313 SSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSM  392 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  392 (542)
                      ++|.+.++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...+++.
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666666666553 3345566666666666677777777666666543 335566666666666677777777777766


Q ss_pred             HhCCCCCCHHHHH------------HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-----HHHHHHHhhcccccccC
Q 009143          393 LEKSVVPEPHIWN------------VIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFT-----FNALILAETRGASCNLG  455 (542)
Q Consensus       393 ~~~~~~~~~~~~~------------~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-----~~~ll~~~~~~~~~~~g  455 (542)
                      .+..+. +...+.            .+...+.+.|++++|...++++.+..  |+...     +..+...     +...|
T Consensus       215 ~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~-----~~~~~  286 (359)
T 3ieg_A          215 LKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHC-----FSKDE  286 (359)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHH-----HHHTT
T ss_pred             HhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHH-----HHHcc
Confidence            654432 333322            33666888889999999988888743  33221     2222222     66789


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHh
Q 009143          456 HIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRR  523 (542)
Q Consensus       456 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~  523 (542)
                      ++++|.+.+++..+.. +.+..+|..+..++...|++++|...++++.+..+ .+...+..+..+...
T Consensus       287 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          287 KPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE-NDQQIREGLEKAQRL  352 (359)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHH
Confidence            9999999999888752 33678888899999999999999999999888632 245556666555443

>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=99.88  E-value=1.7e-19  Score=183.77  Aligned_cols=370  Identities=11%  Similarity=0.076  Sum_probs=285.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .++.+|..+...+.+.|++++|+..++++++.. +.+..++..+...+...|++++|.+.|+ .....+.+.    ...+
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~-~~~~~~~~~----~~~~  130 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLS-VLSLNGDFD----GASI  130 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH-HHC--------------
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHH-HHhcCCCCC----hHHH
Confidence            577899999999999999999999999999874 3467889999999999999999999996 444333222    2234


Q ss_pred             HHHHHcCChhhHHHHHHHHHHC------CCCCChHH------------------------------HHHHHHHHH-----
Q 009143          196 TGYCRVNELDKALHLFSTMANN------GIRPNRVT------------------------------HNILVHALC-----  234 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~------g~~p~~~~------------------------------~~~l~~~~~-----  234 (542)
                      ..+...+...+|...++++...      ...|+...                              ...+...+.     
T Consensus       131 ~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  210 (537)
T 3fp2_A          131 EPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEG  210 (537)
T ss_dssp             -CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhh
Confidence            4455556667888888887542      11222221                              112222111     


Q ss_pred             ---hcCChhHHHHHHHHHHhCCCCCCCCc-------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          235 ---KKGLLGDAVKFLGEVLADDDGKATSD-------VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       235 ---~~g~~~~a~~~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                         ..|++++|..+++++++..+    .+       ..++..+...+...|++++|...++++.+..  |+...+..+..
T Consensus       211 ~~~a~~~~~~A~~~~~~~l~~~p----~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~  284 (537)
T 3fp2_A          211 YLVANDLLTKSTDMYHSLLSANT----VDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLAL  284 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--C----CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHCC----CcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHH
Confidence               12578999999999998776    33       3357778888999999999999999999874  55889999999


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH
Q 009143          305 GFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVK  384 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  384 (542)
                      .+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++
T Consensus       285 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~  362 (537)
T 3fp2_A          285 TLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTE  362 (537)
T ss_dssp             HTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999999874 4467889999999999999999999999998864 3356788999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CC----CHHHHHHHHHHhhccccccc-----
Q 009143          385 AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGV-SS----NVFTFNALILAETRGASCNL-----  454 (542)
Q Consensus       385 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p----~~~~~~~ll~~~~~~~~~~~-----  454 (542)
                      |...++++.+..+. +...+..+...+...|++++|...|+++.+... .+    ....+......     +...     
T Consensus       363 A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~-----~~~~~~~~~  436 (537)
T 3fp2_A          363 SEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATI-----LARQSSQDP  436 (537)
T ss_dssp             HHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHH-----HHHHHTC--
T ss_pred             HHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHH-----HHHHhhccc
Confidence            99999999987654 678999999999999999999999999876321 01    11111111111     4445     


Q ss_pred             -----CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcC
Q 009143          455 -----GHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       455 -----g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  506 (542)
                           |++++|...++++.+.. +.+...+..+..+|.+.|++++|.+.++++.+..
T Consensus       437 ~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          437 TQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence                 99999999999999853 3356889999999999999999999999999864

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=1.9e-17  Score=166.35  Aligned_cols=372  Identities=12%  Similarity=0.006  Sum_probs=303.9

Q ss_pred             CChhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHH----cCChhHHHHHHHHHhhCCCCCC
Q 009143          116 TDYRRHVAVIRDLCL----GGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCK----IGDLEKADHVIREMSEMRPSPN  187 (542)
Q Consensus       116 ~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~  187 (542)
                      .++..+..+...|..    .+++++|+..|++..+.|   ++..+..|...|..    .+++++|.+.|++..+.+   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            466777888888887    899999999999999875   67788899999998    899999999999998864   5


Q ss_pred             HHhHHHHHHHHHH----cCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCCC
Q 009143          188 CATYNAFITGYCR----VNELDKALHLFSTMANNGIRPNRVTHNILVHALCK----KGLLGDAVKFLGEVLADDDGKATS  259 (542)
Q Consensus       188 ~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~  259 (542)
                      ...+..|...|..    .+++++|...|++..+.|   +...+..+...|..    .++.++|.+.|++..+.+      
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~------  181 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG------  181 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT------
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC------
Confidence            6777888888888    789999999999998875   67788888888887    889999999999998853      


Q ss_pred             cHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCCH
Q 009143          260 DVITSTILMDSYFK----NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL----NGDISSAFAYFCQMLKRGFLPDV  331 (542)
Q Consensus       260 ~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~p~~  331 (542)
                      +...+..+...|..    .++.++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..+.|   +.
T Consensus       182 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  255 (490)
T 2xm6_A          182 NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NS  255 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CH
T ss_pred             CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            56788889999988    899999999999999875   67788888888886    889999999999998865   55


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHH
Q 009143          332 ITYNTLLNCLCK----QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIH-----GDIVKAREFLLSMLEKSVVPEPH  402 (542)
Q Consensus       332 ~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~  402 (542)
                      ..+..+...|..    .++.++|...|+...+.|   +...+..+...|...     +++++|...+++..+.+   +..
T Consensus       256 ~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~  329 (490)
T 2xm6_A          256 IAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DAT  329 (490)
T ss_dssp             HHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHH
Confidence            677777778877    899999999999998765   566777788888877     89999999999999875   567


Q ss_pred             HHHHHHHHHHhcC---ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHH
Q 009143          403 IWNVIIDGYGRCG---DLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITY  479 (542)
Q Consensus       403 ~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  479 (542)
                      .+..+...|...|   ++++|.+.|++..+.+   +...+..+-..+.. +....+++++|.+.|++..+.|   +...+
T Consensus       330 a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~-g~g~~~~~~~A~~~~~~A~~~~---~~~a~  402 (490)
T 2xm6_A          330 AQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQ-GKGVKKDEQQAAIWMRKAAEQG---LSAAQ  402 (490)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH-TSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHc-CCCCCCCHHHHHHHHHHHHhCC---CHHHH
Confidence            8888888888766   8899999999999864   34444444333211 1122689999999999999865   56788


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHhHcCCC-C-ChhHHHHHHHHH
Q 009143          480 TELIKGHCA----RGNMKEAEEVFAKIQTLGLA-I-DHIPFRILKKRY  521 (542)
Q Consensus       480 ~~li~~~~~----~g~~~~A~~~~~~m~~~g~~-~-~~~~~~~l~~~~  521 (542)
                      ..|...|..    .+++++|...|++..+.+.. | +......+...+
T Consensus       403 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~  450 (490)
T 2xm6_A          403 VQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLT  450 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcC
Confidence            889999988    89999999999999997643 2 333444444333

>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=99.87  E-value=3.4e-19  Score=169.26  Aligned_cols=294  Identities=12%  Similarity=0.025  Sum_probs=231.6

Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHH
Q 009143          114 LETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNA  193 (542)
Q Consensus       114 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  193 (542)
                      .+.++..+..+...+...|++++|+.+|+++.+.. +.+...+..++..+...|++++|...++++.+..+ .+...|..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHH
Confidence            44667778888888889999999999999988764 33566777788888899999999999999888665 36778888


Q ss_pred             HHHHHHHcC-ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHH
Q 009143          194 FITGYCRVN-ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYF  272 (542)
Q Consensus       194 li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  272 (542)
                      +...+...| ++++|.+.|++..+.. +.+...+..+...+...|++++|.+.++++++..+    .+...+..+...+.
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~l~~~~~  170 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK----GCHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT----TCSHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc----ccHHHHHHHHHHHH
Confidence            888888998 8999999999988763 33567788888899999999999999999888776    56677777888899


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHhc
Q 009143          273 KNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG--------FLPDVITYNTLLNCLCKQ  344 (542)
Q Consensus       273 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~--------~~p~~~~~~~li~~~~~~  344 (542)
                      ..|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+..        .+....++..+...+...
T Consensus       171 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            9999999999999888775 5677888888888889999999999888887642        123356777888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCCh
Q 009143          345 GKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGY-GRCGDL  417 (542)
Q Consensus       345 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~  417 (542)
                      |++++|...+++..+.. +.+...+..+...+.+.|++++|.+.++++.+..+. +...+..+..++ ...|+.
T Consensus       250 g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          250 KKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD-DTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC-CHHHHHHHHHHHHTTTTC-
T ss_pred             cCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC-chHHHHHHHHHHHHHhCch
Confidence            88888888888887754 335667777888888888888888888888776543 667777777776 444543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.87  E-value=7.4e-17  Score=162.12  Aligned_cols=365  Identities=13%  Similarity=0.085  Sum_probs=305.5

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHH----cCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHH----cCChhhH
Q 009143          136 TALWLRRKMIQKGTVPDVLTHNYLVNELCK----IGDLEKADHVIREMSEMRPSPNCATYNAFITGYCR----VNELDKA  207 (542)
Q Consensus       136 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A  207 (542)
                      .+...+....+.|   ++..+..+...|..    .+++++|.+.|++..+.+   +...+..|...|..    .+++++|
T Consensus        25 ~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A   98 (490)
T 2xm6_A           25 VNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQA   98 (490)
T ss_dssp             CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            3455566665544   77888888888888    899999999999998864   56788889999998    8999999


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh----cCCHHH
Q 009143          208 LHLFSTMANNGIRPNRVTHNILVHALCK----KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK----NGDKFQ  279 (542)
Q Consensus       208 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  279 (542)
                      .+.|++..+.|   +...+..|...|..    .+++++|.+.+++..+.+      +...+..|...|..    .++.++
T Consensus        99 ~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~------~~~a~~~Lg~~y~~g~g~~~d~~~  169 (490)
T 2xm6_A           99 VIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG------RDSGQQSMGDAYFEGDGVTRDYVM  169 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT------CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            99999998865   67778888888988    889999999999998854      45678888888887    889999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 009143          280 ALALWNDMFQKNIQTDIVAYNVLINGFCL----NGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK----QGKLDEAS  351 (542)
Q Consensus       280 a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~  351 (542)
                      |.+.|++..+.+   +...+..|...|..    .++.++|.+.|++..+.|   +...+..+...|..    .+++++|.
T Consensus       170 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~  243 (490)
T 2xm6_A          170 AREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSR  243 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            999999999875   78888999999988    899999999999999875   56778888888886    78999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----CChHHHHH
Q 009143          352 HFYGVLSKTGVAPDQISYKTIIQGLCI----HGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC-----GDLSNAFS  422 (542)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~  422 (542)
                      .+|+...+.|   +...+..+...|..    .++.++|.+.+++..+.+   +...+..+...|...     +++++|..
T Consensus       244 ~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~  317 (490)
T 2xm6_A          244 VLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAIS  317 (490)
T ss_dssp             HHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHH
Confidence            9999998865   46677777778877    899999999999998864   667888888888887     89999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHhhcccccccC---ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHH
Q 009143          423 IRDLMLSFGVSSNVFTFNALILAETRGASCNLG---HIHLALQLYDEMLRRGITPDIITYTELIKGHCA----RGNMKEA  495 (542)
Q Consensus       423 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g---~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A  495 (542)
                      .|++..+.+   +...+..+-..     +...|   +.++|.++|++..+.|   ++..+..+...|..    .+++++|
T Consensus       318 ~~~~a~~~~---~~~a~~~lg~~-----y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A  386 (490)
T 2xm6_A          318 WYTKSAEQG---DATAQANLGAI-----YFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQA  386 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHH-----HHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHhcC---CHHHHHHHHHH-----HHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            999999865   22333333332     22224   7899999999999864   67888899999998    8999999


Q ss_pred             HHHHHHHhHcCCCCChhHHHHHHHHHHh----cCChhHHHHHHHHHhhcC
Q 009143          496 EEVFAKIQTLGLAIDHIPFRILKKRYRR----MKESDKARDIHQKWLLRN  541 (542)
Q Consensus       496 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~l~~~  541 (542)
                      ...+++..+.|   +...+..+...|..    .++.++|.++|+++++.+
T Consensus       387 ~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          387 AIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            99999999874   57788889999988    899999999999998653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.87  E-value=2.2e-17  Score=167.65  Aligned_cols=410  Identities=9%  Similarity=0.017  Sum_probs=301.9

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .|...|..++. +.+.|++++|..+|+++++. .+.+...|...+..+.+.|++++|.++|+++....  |+...|..++
T Consensus        11 ~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           11 YDLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             TCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            47779999998 47889999999999999986 34467789999999999999999999999998865  5777887777


Q ss_pred             HHH-HHcCChhhHHH----HHHHHHHC-CCCC-ChHHHHHHHHHHHh---------cCChhHHHHHHHHHHhCCCCCCCC
Q 009143          196 TGY-CRVNELDKALH----LFSTMANN-GIRP-NRVTHNILVHALCK---------KGLLGDAVKFLGEVLADDDGKATS  259 (542)
Q Consensus       196 ~~~-~~~g~~~~A~~----~~~~m~~~-g~~p-~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~~~~~~~~~~  259 (542)
                      ... ...|+.++|.+    +|++.... |..| +...|...+....+         .|+++.|.++|++.++. +..  .
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~-P~~--~  163 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN-PMI--N  163 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS-CCT--T
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc-hhh--h
Confidence            533 45688887766    77766543 5444 45677777776654         68899999999999983 211  2


Q ss_pred             cHHHHHHHHHHH-------------HhcCCHHHHHHHHHHH------HHCC---CCCC--------HHHHHHHHHHHHhC
Q 009143          260 DVITSTILMDSY-------------FKNGDKFQALALWNDM------FQKN---IQTD--------IVAYNVLINGFCLN  309 (542)
Q Consensus       260 ~~~~~~~l~~~~-------------~~~g~~~~a~~~~~~~------~~~~---~~~~--------~~~~~~li~~~~~~  309 (542)
                      ....|.......             .+.++++.|..++..+      .+..   ++|+        ...|...+......
T Consensus       164 ~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~  243 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSN  243 (530)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcC
Confidence            234444333211             1245677777777663      2221   2443        24565555443322


Q ss_pred             ----CCH----HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHCCCCCChh
Q 009143          310 ----GDI----SSAFAYFCQMLKRGFLPDVITYNTLLNCLCK-------QGKLD-------EASHFYGVLSKTGVAPDQI  367 (542)
Q Consensus       310 ----~~~----~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~~~~~~~~~~~~  367 (542)
                          ++.    +.+..+|+++.... +.+...|...+..+.+       .|+++       +|..++++..+.-.+.+..
T Consensus       244 ~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~  322 (530)
T 2ooe_A          244 PLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNML  322 (530)
T ss_dssp             SSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHH
T ss_pred             CccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHH
Confidence                232    47788999988863 4467788888887775       78887       8999999988632344678


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHh
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEP-HIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAE  446 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  446 (542)
                      .+..++..+.+.|++++|..+++++++..+. +. ..|...+..+.+.|++++|.++|++..+... .+...|.......
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~  400 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALME  400 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHH
Confidence            8999999999999999999999999986433 33 5899999999999999999999999998531 1222222211110


Q ss_pred             hcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCC-CCC--hhHHHHHHHHHHh
Q 009143          447 TRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGL-AID--HIPFRILKKRYRR  523 (542)
Q Consensus       447 ~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~~~--~~~~~~l~~~~~~  523 (542)
                          +...|+.++|..+|++..+.. +.+...|..++..+.+.|+.++|..+|++....+. .|+  ...|...+.....
T Consensus       401 ----~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~  475 (530)
T 2ooe_A          401 ----YYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESN  475 (530)
T ss_dssp             ----HHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHH
T ss_pred             ----HHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence                235799999999999998852 23578899999999999999999999999998642 232  4478888888899


Q ss_pred             cCChhHHHHHHHHHhhc
Q 009143          524 MKESDKARDIHQKWLLR  540 (542)
Q Consensus       524 ~g~~~~A~~~~~~~l~~  540 (542)
                      .|+.+.+.++++++++.
T Consensus       476 ~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          476 IGDLASILKVEKRRFTA  492 (530)
T ss_dssp             SSCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            99999999999998653

>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=99.86  E-value=6.8e-19  Score=167.20  Aligned_cols=285  Identities=12%  Similarity=0.027  Sum_probs=235.2

Q ss_pred             CCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHH
Q 009143          149 TVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNI  228 (542)
Q Consensus       149 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  228 (542)
                      ...+...+..++..+...|++++|.++|+++.+..| .+...+..++..+...|++++|..+++++.+.. +.+...+..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            345677888889999999999999999999988765 356677778888999999999999999998763 346788888


Q ss_pred             HHHHHHhcC-ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 009143          229 LVHALCKKG-LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC  307 (542)
Q Consensus       229 l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  307 (542)
                      +...+...| ++++|.+.+++++...+    .+..++..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~  170 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLEK----TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTCT----TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHH
Confidence            999999999 99999999999998876    677889999999999999999999999998875 445677778999999


Q ss_pred             hCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------CCCChhhHHHHHHHHHhc
Q 009143          308 LNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG--------VAPDQISYKTIIQGLCIH  379 (542)
Q Consensus       308 ~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~~~~~li~~~~~~  379 (542)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|...++...+..        .+....++..+...+...
T Consensus       171 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            9999999999999998774 4467888889999999999999999998887642        133456888888889999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN-VFTFNALIL  444 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~  444 (542)
                      |++++|...++++.+..+. +...+..+...+.+.|++++|...|+++.+.  .|+ ...+..+..
T Consensus       250 g~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~  312 (330)
T 3hym_B          250 KKYAEALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGL--RRDDTFSVTMLGH  312 (330)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT--CSCCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHcc--CCCchHHHHHHHH
Confidence            9999999999998887654 7788888899999999999999999888774  443 344444443

>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=99.85  E-value=2.6e-19  Score=173.00  Aligned_cols=267  Identities=15%  Similarity=0.079  Sum_probs=170.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLC  342 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  342 (542)
                      .+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|.+.|+++.+.. +.+..++..+...+.
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  143 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFT  143 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34444444445555555555555544443 3344444444445555555555555555444432 223444444445555


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHH---------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHH
Q 009143          343 KQGKLDEASHFYGVLSKTGVAPDQISYK---------------TIIQGLCIHGDIVKAREFLLSMLEKSVVP-EPHIWNV  406 (542)
Q Consensus       343 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~---------------~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~  406 (542)
                      ..|++++|...++.+.+.... +...+.               ..+..+...|++++|...++++.+..+.. +..++..
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~  222 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  222 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHH
Confidence            555555555555544443211 111111               01223337788889999998888765432 5788888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009143          407 IIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGH  486 (542)
Q Consensus       407 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  486 (542)
                      +...|.+.|++++|...|+++.+.. +.+...+..+...     +...|++++|...++++.+.. +.+...+..+..+|
T Consensus       223 l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~-----~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~  295 (368)
T 1fch_A          223 LGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGAT-----LANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISC  295 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH-----HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHH-----HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            8889999999999999998888742 2245566666555     667899999999999988753 33568889999999


Q ss_pred             HhcCCHHHHHHHHHHHhHcCCCC----------ChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          487 CARGNMKEAEEVFAKIQTLGLAI----------DHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       487 ~~~g~~~~A~~~~~~m~~~g~~~----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      .+.|++++|...++++.+.....          ...+|..+..+|...|+.++|..++++.++
T Consensus       296 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          296 INLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            99999999999999988742211          167899999999999999999998876553

>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=99.84  E-value=7.3e-19  Score=169.87  Aligned_cols=288  Identities=16%  Similarity=0.052  Sum_probs=198.5

Q ss_pred             hcCChHHHHH-HHHHHHhCCCC-C--ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChh
Q 009143          130 LGGKIGTALW-LRRKMIQKGTV-P--DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELD  205 (542)
Q Consensus       130 ~~g~~~~A~~-~~~~m~~~g~~-p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  205 (542)
                      ..|++++|+. .+++....... |  +...+..+...+.+.|++++|...|+++.+..| .+..++..+..++.+.|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHH
Confidence            3466777776 66655443111 1  345566777777777777777777777777654 35667777777777777777


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHH---------------HHHH
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTI---------------LMDS  270 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~---------------l~~~  270 (542)
                      +|...++++.+.. +.+..++..+...+...|++++|.+.+++++...+    .+...+..               .+..
T Consensus       116 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (368)
T 1fch_A          116 LAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTP----AYAHLVTPAEEGAGGAGLGPSKRILGS  190 (368)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST----TTGGGCC---------------CTTHH
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----CcHHHHHHHHHHhhhhcccHHHHHHHH
Confidence            7777777776653 33566777777777777777777777777777655    22222221               1333


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 009143          271 YFKNGDKFQALALWNDMFQKNIQT--DIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       271 ~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  348 (542)
                      +...|++++|...++++.+.. +.  +..++..+...+...|++++|+..|+++.+.. +.+..++..+...+...|+++
T Consensus       191 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~  268 (368)
T 1fch_A          191 LLSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSE  268 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HhhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHH
Confidence            337888888888888887764 22  57788888888888888888888888887763 345677888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----------CHHHHHHHHHHHHhcCChH
Q 009143          349 EASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP----------EPHIWNVIIDGYGRCGDLS  418 (542)
Q Consensus       349 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~----------~~~~~~~li~~~~~~g~~~  418 (542)
                      +|...++++.+.. +.+..++..+...|.+.|++++|...++++.+..+..          ...+|..+..+|...|+++
T Consensus       269 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          269 EAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            8888888887753 3456778888888888888888888888877643321          2677888888888888888


Q ss_pred             HHHHHHHH
Q 009143          419 NAFSIRDL  426 (542)
Q Consensus       419 ~A~~~~~~  426 (542)
                      +|..++++
T Consensus       348 ~A~~~~~~  355 (368)
T 1fch_A          348 AYGAADAR  355 (368)
T ss_dssp             GHHHHHTT
T ss_pred             hHHHhHHH
Confidence            88877664

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.83  E-value=3.3e-17  Score=163.96  Aligned_cols=386  Identities=10%  Similarity=-0.044  Sum_probs=246.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-----C---CCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCC----
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQK-----G---TVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMR----  183 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g---~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----  183 (542)
                      .....||.|...+...|++++|++.|++.++.     +   ......+|+.+...|...|++++|...+++..+..    
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            34557899999999999999999999987652     1   12235678889999999999999999998876521    


Q ss_pred             -C-C-CCHHhHHHHHHHHHHc--CChhhHHHHHHHHHHCCCCCChHHHHHHHHH---HHhcCChhHHHHHHHHHHhCCCC
Q 009143          184 -P-S-PNCATYNAFITGYCRV--NELDKALHLFSTMANNGIRPNRVTHNILVHA---LCKKGLLGDAVKFLGEVLADDDG  255 (542)
Q Consensus       184 -~-~-~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~~~  255 (542)
                       + . ....++..+..++...  +++++|++.|++..+.. +-+...+..+..+   +...++.++|++.+++.++..+ 
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-  206 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-  206 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-
Confidence             1 1 1345666666555554  46899999999988753 2244555555544   3456788899999999988776 


Q ss_pred             CCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH
Q 009143          256 KATSDVITSTILMDSYFK----NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV  331 (542)
Q Consensus       256 ~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~  331 (542)
                         .+..++..+...+..    .|+.++|.+.+++..... +.+..++..+...|...|++++|++.++++.+.. +.+.
T Consensus       207 ---~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~  281 (472)
T 4g1t_A          207 ---DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNA  281 (472)
T ss_dssp             ---SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCH
T ss_pred             ---cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChH
Confidence               677777777666555    456788999999888765 6678888899999999999999999999988763 3345


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009143          332 ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGY  411 (542)
Q Consensus       332 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  411 (542)
                      .++..+...|...+....         ... .      ..........+..++|...+++..+.++. +...+..+...|
T Consensus       282 ~~~~~lg~~y~~~~~~~~---------~~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~  344 (472)
T 4g1t_A          282 YLHCQIGCCYRAKVFQVM---------NLR-E------NGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLH  344 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHH---------HC-------------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhh---------hHH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHH
Confidence            666666665543211110         100 0      00000111123456788888887776543 566778888888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHH--HHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009143          412 GRCGDLSNAFSIRDLMLSFGVSSNVF--TFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCAR  489 (542)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  489 (542)
                      ...|++++|...|++..+....|...  .+..+...    .....|+.++|+..|++..+.  .|+.....         
T Consensus       345 ~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~---------  409 (472)
T 4g1t_A          345 ALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNF----QLYQMKCEDKAIHHFIEGVKI--NQKSREKE---------  409 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH----HHHTSSCHHHHHHHHHHHHHS--CCCCHHHH---------
T ss_pred             HHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH----HHHHCCCHHHHHHHHHHHHhc--CcccHHHH---------
Confidence            88888888888888888754333221  11111111    134568888898888888875  44433222         


Q ss_pred             CCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          490 GNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       490 g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      +....+.+++++..+.. +.+..+|..+..+|...|++++|.+.|+++++.+
T Consensus       410 ~~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          410 KMKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            22234455666665543 3467788888888888899999999998888753

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.82  E-value=1.2e-16  Score=159.85  Aligned_cols=390  Identities=9%  Similarity=-0.052  Sum_probs=251.2

Q ss_pred             chhHHHHHHHHH--HhhHHHHHHHHh----hCCCCCC--CCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-----C
Q 009143           83 PQAVFNALDLIL--KENLDRLKTMRD----TGPVRCT--LET-DYRRHVAVIRDLCLGGKIGTALWLRRKMIQK-----G  148 (542)
Q Consensus        83 ~~~~~~~l~~~~--~~~~~~~~~~~~----~~~~~~~--~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g  148 (542)
                      ...+++.|-.++  .+..+.+...++    ..+...+  ..| ...+|+.+...|...|++++|...+++..+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            345677665554  344444444443    3221111  123 3458999999999999999999999987653     1


Q ss_pred             -CC-CChhhHHHHHHHHHHc--CChhHHHHHHHHHhhCCCCCCHHhHHHHHHH---HHHcCChhhHHHHHHHHHHCCCCC
Q 009143          149 -TV-PDVLTHNYLVNELCKI--GDLEKADHVIREMSEMRPSPNCATYNAFITG---YCRVNELDKALHLFSTMANNGIRP  221 (542)
Q Consensus       149 -~~-p~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~---~~~~g~~~~A~~~~~~m~~~g~~p  221 (542)
                       .. ....++..+..++.+.  +++++|++.|++..+..|. +...+..+..+   +...++.++|++.+++..+.. +.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence             11 1345666666666654  5789999999999987663 55666655554   445688899999999988763 33


Q ss_pred             ChHHHHHHHHHHHhc----CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 009143          222 NRVTHNILVHALCKK----GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIV  297 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  297 (542)
                      +..++..+...+...    |+.++|.+.+++.....+    .+..++..+...|...|++++|...+++..+.. +.+..
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~----~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~  282 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP----GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAY  282 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS----SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc----cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHH
Confidence            566777777776654    578899999999999887    788999999999999999999999999999875 55677


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC  377 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  377 (542)
                      ++..+...|...+...         .... .      ..........+..+.|...++...+.. +.+..++..+...|.
T Consensus       283 ~~~~lg~~y~~~~~~~---------~~~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~  345 (472)
T 4g1t_A          283 LHCQIGCCYRAKVFQV---------MNLR-E------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHA  345 (472)
T ss_dssp             HHHHHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh---------hhHH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHH
Confidence            7877776664321111         1110 0      001111112234678888888887754 345678888999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHH-HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccccccc
Q 009143          378 IHGDIVKAREFLLSMLEKSVVPEPH--IWNVIID-GYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNL  454 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~li~-~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  454 (542)
                      ..|++++|.+.|++.++..+.+...  .+..+.. .+.+.|++++|+..|++..+.  .|+......             
T Consensus       346 ~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~-------------  410 (472)
T 4g1t_A          346 LADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEK-------------  410 (472)
T ss_dssp             HTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHH-------------
T ss_pred             HhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHH-------------
Confidence            9999999999999999876543221  2333332 345789999999999999884  555433222             


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCC-CCChhH
Q 009143          455 GHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGL-AIDHIP  513 (542)
Q Consensus       455 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~~~~~~  513 (542)
                       ..+.+.+++++..+.. +.+..+|..+..+|...|++++|.+.|++..+.|. .|+...
T Consensus       411 -~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~  468 (472)
T 4g1t_A          411 -MKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASS  468 (472)
T ss_dssp             -HHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC---------------------
T ss_pred             -HHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhh
Confidence             2344556666666542 44678999999999999999999999999998643 344443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=3.6e-18  Score=164.88  Aligned_cols=236  Identities=13%  Similarity=0.074  Sum_probs=174.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      +...|..+...+.+.|++++|+..|+++++.. +.+..++..+...|.+.|++++|.+.|+++.+..+ .+..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            44568888999999999999999999998864 34678899999999999999999999999988765 46788999999


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCC-----------hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPN-----------RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      +|...|++++|...++++.+..  |+           ...+..+...+...|++++|.+.+++++...+..  .+..++.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~--~~~~~~~  217 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDM--IDPDLQT  217 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSS--CCHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCc--cCHHHHH
Confidence            9999999999999999987742  22           1222334667777788888888888887766511  2677777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG  345 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  345 (542)
                      .+...+...|++++|.+.++++.+.. +.+..+|..+...+...|++++|+..|+++.+.. +.+..++..+..+|.+.|
T Consensus       218 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          218 GLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            77788888888888888887777664 4567777777777777777777777777777653 334666777777777777


Q ss_pred             CHHHHHHHHHHHHHC
Q 009143          346 KLDEASHFYGVLSKT  360 (542)
Q Consensus       346 ~~~~A~~~~~~~~~~  360 (542)
                      ++++|...|+++.+.
T Consensus       296 ~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          296 AYREAVSNFLTALSL  310 (365)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            777777777766553

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=5.8e-18  Score=163.43  Aligned_cols=266  Identities=14%  Similarity=-0.002  Sum_probs=199.6

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHH
Q 009143          152 DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH  231 (542)
Q Consensus       152 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  231 (542)
                      +...+..+...+.+.|++++|.+.|+++.+..| .+..+|..+...+.+.|++++|+..|+++.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            455688888889999999999999999988765 478888999999999999999999999988763 345788888999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCCCcHH----------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHH
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVI----------TSTILMDSYFKNGDKFQALALWNDMFQKNIQT--DIVAY  299 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~----------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~  299 (542)
                      .+...|++++|.+.++++++..+    .+..          .+..+...+.+.|++++|...++++.+.. +.  +..++
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  216 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNP----KYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQ  216 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCH----HHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCc----cchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHH
Confidence            99999999999999999887654    2222          23345778888888888888888888764 23  67788


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIH  379 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  379 (542)
                      ..+...+...|++++|++.|+++.+.. +.+..++..+..+|...|++++|...++++.+.. +.+..++..+...|.+.
T Consensus       217 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  294 (365)
T 4eqf_A          217 TGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINL  294 (365)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHC
Confidence            888888888888888888888887763 4457778888888888888888888888887753 33467778888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCC-----------CCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 009143          380 GDIVKAREFLLSMLEKSVV-----------PEPHIWNVIIDGYGRCGDLSNAFSIRDL  426 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~  426 (542)
                      |++++|...++++++..+.           .+...|..+..++...|+.+.+..+.++
T Consensus       295 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          295 GAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             TCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            8888888888887764311           1256677888888888888777766554

>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=99.80  E-value=9.9e-18  Score=158.90  Aligned_cols=280  Identities=11%  Similarity=-0.022  Sum_probs=177.5

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      +...|..+...+...|++++|+.+|+++.+.. +.+..++..+...+...|++++|.+.++++.+..+ .+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-CCHHHHHHHHH
Confidence            44456777777788888888888888877753 23566777777778888888888888887777654 35667777777


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHH-HH-HHHhc
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTIL-MD-SYFKN  274 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l-~~-~~~~~  274 (542)
                      .+...|++++|.+.++++.+.. +.+...+..+....                         ++......+ .. .+...
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~-------------------------~~~~~~~~~~~~~~~~~~  151 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQAD-------------------------VDIDDLNVQSEDFFFAAP  151 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC---------------------------------------------CCTTSH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHH-------------------------HHHHHHHHHHHhHHHHHc
Confidence            7777777777777777777642 11222222220000                         000011111 11 25556


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 009143          275 GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFY  354 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  354 (542)
                      |++++|.+.++++.+.. +.+..++..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...+
T Consensus       152 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  229 (327)
T 3cv0_A          152 NEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAY  229 (327)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            66667777776666554 3456666667777777777777777777766653 334566666777777777777777777


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----------CHHHHHHHHHHHHhcCChHHHHHH
Q 009143          355 GVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP-----------EPHIWNVIIDGYGRCGDLSNAFSI  423 (542)
Q Consensus       355 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~  423 (542)
                      +++.+.. +.+..++..+...+...|++++|.+.++++.+..+..           +...|..+..++.+.|++++|..+
T Consensus       230 ~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  308 (327)
T 3cv0_A          230 NRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELT  308 (327)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            7766643 2345666777777777777777777777776543321           356777788888888888888777


Q ss_pred             HHHH
Q 009143          424 RDLM  427 (542)
Q Consensus       424 ~~~m  427 (542)
                      +++.
T Consensus       309 ~~~~  312 (327)
T 3cv0_A          309 YAQN  312 (327)
T ss_dssp             TTCC
T ss_pred             HHHH
Confidence            6644

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.80  E-value=8.6e-16  Score=155.96  Aligned_cols=384  Identities=10%  Similarity=-0.004  Sum_probs=276.4

Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCC
Q 009143          141 RRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIR  220 (542)
Q Consensus       141 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  220 (542)
                      +++.++.. +-+...|..++. +.+.|++++|..+|+++.+..| .+...|..++..+.+.|++++|..+|+++...  .
T Consensus         2 le~al~~~-P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P-~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~   76 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFP-SSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--V   76 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--C
T ss_pred             hhhHhhhC-CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--C
Confidence            34444442 337788999998 4789999999999999998766 47889999999999999999999999999875  4


Q ss_pred             CChHHHHHHHHHH-HhcCChhHHHH----HHHHHHhCCCCCCCCcHHHHHHHHHHHHh---------cCCHHHHHHHHHH
Q 009143          221 PNRVTHNILVHAL-CKKGLLGDAVK----FLGEVLADDDGKATSDVITSTILMDSYFK---------NGDKFQALALWND  286 (542)
Q Consensus       221 p~~~~~~~l~~~~-~~~g~~~~a~~----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~a~~~~~~  286 (542)
                      |+...|...+... ...|+.+.|.+    +|+..+..-. ..+.+...|...+....+         .|+++.|..+|++
T Consensus        77 p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g-~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~  155 (530)
T 2ooe_A           77 LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIG-MEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQR  155 (530)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTT-TSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHH
Confidence            6877777777533 45688877765    7777665321 111567788888877665         7899999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHH-------------HhCCCHHHHHHHHHHHH------HcC---CCCC--------HHHHHH
Q 009143          287 MFQKNIQTDIVAYNVLINGF-------------CLNGDISSAFAYFCQML------KRG---FLPD--------VITYNT  336 (542)
Q Consensus       287 ~~~~~~~~~~~~~~~li~~~-------------~~~~~~~~A~~~~~~~~------~~~---~~p~--------~~~~~~  336 (542)
                      .++.........|.......             ...+++..|..++.+..      +..   ++|+        ...|..
T Consensus       156 al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~  235 (530)
T 2ooe_A          156 GCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKK  235 (530)
T ss_dssp             HTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHH
T ss_pred             HHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHH
Confidence            99731111123443322211             12356777777776632      211   2343        234444


Q ss_pred             HHHHHHhc----CCH----HHHHHHHHHHHHCCCCCChhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHh
Q 009143          337 LLNCLCKQ----GKL----DEASHFYGVLSKTGVAPDQISYKTIIQGLCI-------HGDIV-------KAREFLLSMLE  394 (542)
Q Consensus       337 li~~~~~~----g~~----~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~~~~  394 (542)
                      .+......    ++.    +.+..+|++..... +.+...|..+...+.+       .|+++       +|..++++.++
T Consensus       236 ~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~  314 (530)
T 2ooe_A          236 YIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIS  314 (530)
T ss_dssp             HHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHH
Confidence            44332221    232    37778898888753 4467788888888775       68876       99999999997


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCC
Q 009143          395 KSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV--FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGI  472 (542)
Q Consensus       395 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~  472 (542)
                      .-.+.+...|..++..+.+.|++++|..+|+++.+.  .|+.  ..|......     +.+.|++++|.++|++..+.. 
T Consensus       315 ~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~-----~~~~~~~~~A~~~~~~Al~~~-  386 (530)
T 2ooe_A          315 TLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKF-----ARRAEGIKSGRMIFKKAREDA-  386 (530)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHTCT-
T ss_pred             HhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHH-----HHHhcCHHHHHHHHHHHHhcc-
Confidence            322337889999999999999999999999999984  5542  456666654     456799999999999999852 


Q ss_pred             CCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          473 TPDIITYTELIKG-HCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       473 ~p~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      +.+...|...+.. +...|++++|..+|++..+.. +.+...|..++..+.+.|+.++|..+|+++++.
T Consensus       387 ~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          387 RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            2233444333322 336899999999999998863 246889999999999999999999999999874

>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=99.80  E-value=1.1e-17  Score=158.64  Aligned_cols=268  Identities=11%  Similarity=-0.041  Sum_probs=159.2

Q ss_pred             HHHHhhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhH
Q 009143           92 LILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEK  171 (542)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  171 (542)
                      .+..+.++.+...++....  ..+.+...|..+...+.+.|++++|...++++.+.. +.+..++..+...+...|++++
T Consensus        31 ~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~  107 (327)
T 3cv0_A           31 MLKLANLAEAALAFEAVCQ--AAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANA  107 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHH
Confidence            3334566666666665431  123467789999999999999999999999999874 3467889999999999999999


Q ss_pred             HHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHH--HHHhcCChhHHHHHHHHH
Q 009143          172 ADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVH--ALCKKGLLGDAVKFLGEV  249 (542)
Q Consensus       172 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~--~~~~~g~~~~a~~~~~~~  249 (542)
                      |.+.++++.+..+. +...+..++...                      |+......+..  .+...|++++|.+.++++
T Consensus       108 A~~~~~~~~~~~~~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  164 (327)
T 3cv0_A          108 ALASLRAWLLSQPQ-YEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEYRECRTLLHAA  164 (327)
T ss_dssp             HHHHHHHHHHTSTT-TTTC------------------------------------------CCTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCc-cHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccHHHHHHHHHHH
Confidence            99999999987653 333333331100                      11111111211  134445555555555555


Q ss_pred             HhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Q 009143          250 LADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLP  329 (542)
Q Consensus       250 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p  329 (542)
                      ++..+    .+..++..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+.. +.
T Consensus       165 ~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~  238 (327)
T 3cv0_A          165 LEMNP----NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PG  238 (327)
T ss_dssp             HHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HhhCC----CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CC
Confidence            55444    445555555555555556666655555555443 3345555556666666666666666666655542 22


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----------ChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          330 DVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAP-----------DQISYKTIIQGLCIHGDIVKAREFLLS  391 (542)
Q Consensus       330 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~  391 (542)
                      +..++..+...+...|++++|...++.+.+.....           +..++..+...+.+.|++++|..++++
T Consensus       239 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          239 YVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            44555556666666666666666666555432111           245566666666666666666666554

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=7.1e-17  Score=149.81  Aligned_cols=194  Identities=11%  Similarity=0.068  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      .++..+...+...|+.++|.+.+++++..+..+  .+...+..+...+...|++++|++.+++      +.+...+..++
T Consensus        66 ~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P--~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~  137 (291)
T 3mkr_A           66 QAVRMFAEYLASHSRRDAIVAELDREMSRSVDV--TNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTV  137 (291)
T ss_dssp             HHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCC--SCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCC--CCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHH
Confidence            334444444444444444444444443322000  2333344444444444444444444443      23344444444


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 009143          304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITY---NTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG  380 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  380 (542)
                      ..+.+.|++++|.+.|+++.+..  |+....   ..++..+...|++++|..+|+++.+. .+.+...++.+..++.+.|
T Consensus       138 ~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g  214 (291)
T 3mkr_A          138 QILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQG  214 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcC
Confidence            44444444444444444444431  221100   01112222234455555555555443 2334444555555555555


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHh
Q 009143          381 DIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSN-AFSIRDLMLS  429 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~  429 (542)
                      ++++|...++++++..+. ++.++..++..+...|+.++ +.++++++.+
T Consensus       215 ~~~eA~~~l~~al~~~p~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          215 RWEAAEGVLQEALDKDSG-HPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            555555555555544333 44455555555555555443 3345554444

>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=99.78  E-value=2.7e-17  Score=155.98  Aligned_cols=222  Identities=10%  Similarity=0.022  Sum_probs=67.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      +.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|++.++...+.  .+++.+.+.++.+
T Consensus        32 ~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~  103 (449)
T 1b89_A           32 PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFA  103 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHH
Confidence            345666666666666666666665432      34445556666666666666666655444432  2334455556666


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCH
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDK  277 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  277 (542)
                      |.+.|+++++.++++       .|+..+|..+...|...|++++|...|..+            ..|..++.++.+.|++
T Consensus       104 Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------------~n~~~LA~~L~~Lg~y  164 (449)
T 1b89_A          104 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------------SNFGRLASTLVHLGEY  164 (449)
T ss_dssp             -----CHHHHTTTTT-------CC----------------CTTTHHHHHHHT------------TCHHHHHHHHHTTTCH
T ss_pred             HHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------------hhHHHHHHHHHHhccH
Confidence            666666666555553       244456666666666666666666666544            1355566666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          278 FQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVL  357 (542)
Q Consensus       278 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  357 (542)
                      ++|.+.++++      .++.+|..++.+|...|+++.|......     +...+.-...++..|.+.|++++|..+++..
T Consensus       165 q~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          165 QAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             HHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6666666655      1455666666666666666666333322     1122223334555566666666666666555


Q ss_pred             HHCCCCCChhhHHHHHHHHHh
Q 009143          358 SKTGVAPDQISYKTIIQGLCI  378 (542)
Q Consensus       358 ~~~~~~~~~~~~~~li~~~~~  378 (542)
                      .... +.....|+.+.-.|++
T Consensus       234 L~le-~ah~~~ftel~il~~k  253 (449)
T 1b89_A          234 LGLE-RAHMGMFTELAILYSK  253 (449)
T ss_dssp             TTST-TCCHHHHHHHHHHHHT
T ss_pred             hCCc-HHHHHHHHHHHHHHHh
Confidence            5433 2334445555444444

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.77  E-value=1.8e-16  Score=147.10  Aligned_cols=273  Identities=11%  Similarity=0.089  Sum_probs=186.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC
Q 009143          126 RDLCLGGKIGTALWLRRKMIQKGTVPD--VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE  203 (542)
Q Consensus       126 ~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  203 (542)
                      +.....|++..|+..++.....  .|+  ......+.++|...|+++.|...++.   . ..|+..++..+...+...++
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCc
Confidence            3455678888888877765543  233  23455667788888888888765543   1 23566777778888888888


Q ss_pred             hhhHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 009143          204 LDKALHLFSTMANNGIRP-NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA  282 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  282 (542)
                      .++|++.++++...+..| +...+..+...+...|++++|++.+++     +    .+..++..++..+.+.|++++|.+
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-----~----~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-----G----DSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-----C----CSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-----C----CCHHHHHHHHHHHHHCCCHHHHHH
Confidence            888888888887765434 455566677788888888888888776     2    667788888888888888888888


Q ss_pred             HHHHHHHCCCCCCHHHH---HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          283 LWNDMFQKNIQTDIVAY---NVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       283 ~~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      .++++.+..  |+....   ..++..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++..+
T Consensus       152 ~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          152 ELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888887764  332211   12334444557888888888888876 355777788888888888888888888888777


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 009143          360 TGVAPDQISYKTIIQGLCIHGDIVK-AREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFS  422 (542)
Q Consensus       360 ~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  422 (542)
                      .. +.+..++..++..+...|+.++ +.++++++++..+. ++.    +.+...+.+.++++..
T Consensus       229 ~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~-~~~----~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          229 KD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRS-HPF----IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHH----HHHHHHHHHHHHHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCC-ChH----HHHHHHHHHHHHHHHH
Confidence            53 3466677778878888887765 56788887776543 332    2233444444444443

>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=99.75  E-value=1.7e-17  Score=157.34  Aligned_cols=348  Identities=10%  Similarity=0.062  Sum_probs=151.4

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHH
Q 009143          130 LGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALH  209 (542)
Q Consensus       130 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  209 (542)
                      +.|++++|.++++++      +++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            567788888888877      34458888888888888888888888653      466688888888888888888888


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          210 LFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       210 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++        .  |+..+|+.+++.|...|.+++|...|..+  
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~--pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------G--PNNAHIQQVGDRCYDEKMYDAAKLLYNNV--  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT--------C--C----------------CTTTHHHHHHHT--
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------C--CcHHHHHHHHHHHHHcCCHHHHHHHHHHh--
Confidence            77766653  4457778888888888888888877763        1  55568888888888888888888888866  


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 009143          290 KNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISY  369 (542)
Q Consensus       290 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  369 (542)
                             ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+     ...+.-.
T Consensus       149 -------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l  210 (449)
T 1b89_A          149 -------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADEL  210 (449)
T ss_dssp             -------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHH
T ss_pred             -------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhH
Confidence                   35888888888888888888888877      26788888888888888888885544432     2233445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCC------CHHHHHHH
Q 009143          370 KTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS-FGVSS------NVFTFNAL  442 (542)
Q Consensus       370 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p------~~~~~~~l  442 (542)
                      ..++..|.+.|++++|..+++..+... +-....|+.+..+|++- ++++..+-++.-.. -+++|      +...|..+
T Consensus       211 ~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~  288 (449)
T 1b89_A          211 EELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAEL  288 (449)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            567788888888888888888888765 33677777777777664 33333333332222 12222      12334444


Q ss_pred             HHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHH
Q 009143          443 ILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR  522 (542)
Q Consensus       443 l~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~  522 (542)
                      ...     |.+.++++.|..   .|.++  +|+..--..+.+...+..+.+--.+...=..+.    .+...+.|+.++.
T Consensus       289 ~~l-----y~~~~e~d~A~~---tm~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~----~p~~l~~ll~~l~  354 (449)
T 1b89_A          289 VFL-----YDKYEEYDNAII---TMMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLS  354 (449)
T ss_dssp             HHH-----HHHTTCHHHHHH---HHHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHG
T ss_pred             HHH-----HHhhchHHHHHH---HHHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc----CHHHHHHHHHHHH
Confidence            443     556677776655   34443  334444444555555666655444443333332    2334667777777


Q ss_pred             hcCChhHHHHHHHHH
Q 009143          523 RMKESDKARDIHQKW  537 (542)
Q Consensus       523 ~~g~~~~A~~~~~~~  537 (542)
                      ..=+...+..++++.
T Consensus       355 ~~ld~~r~v~~~~~~  369 (449)
T 1b89_A          355 PRLDHTRAVNYFSKV  369 (449)
T ss_dssp             GGCCHHHHHHHHHHT
T ss_pred             hccCcHHHHHHHHHc
Confidence            777778888777764

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.75  E-value=2.6e-18  Score=175.52  Aligned_cols=115  Identities=13%  Similarity=0.135  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 009143          331 VITYNTLLNCLCKQGKLDEASHFYGVLSK---TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVI  407 (542)
Q Consensus       331 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  407 (542)
                      ..||+++|++||+.|++++|..+|++|.+   .|+.||..+||+||++||+.|++++|.++|++|.+.|+.||..|||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            45677777777777777777777766553   366777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhcCCh-HHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009143          408 IDGYGRCGDL-SNAFSIRDLMLSFGVSSNVFTFNALILA  445 (542)
Q Consensus       408 i~~~~~~g~~-~~A~~~~~~m~~~~~~p~~~~~~~ll~~  445 (542)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|++++.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~  245 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE  245 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccCh
Confidence            7777777763 5677777777777777777777776654

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.74  E-value=1.2e-13  Score=146.11  Aligned_cols=354  Identities=12%  Similarity=0.087  Sum_probs=245.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC
Q 009143          124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE  203 (542)
Q Consensus       124 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  203 (542)
                      +...+...|.+++|..+|++...     .....+.++   -..|++++|.++.++.      .+..+|..+..++...|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLi---e~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLI---EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHH---HHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC
Confidence            45566677777777777777521     122222222   2667788887777754      245778888888888888


Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALAL  283 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  283 (542)
                      +++|++.|.+.      -|...|..++..+.+.|++++|.+.+....+...     +....+.++.+|++.+++++....
T Consensus      1121 ~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~-----e~~Idt~LafaYAKl~rleele~f 1189 (1630)
T 1xi4_A         1121 VKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR-----ESYVETELIFALAKTNRLAELEEF 1189 (1630)
T ss_pred             HHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc-----cccccHHHHHHHHhhcCHHHHHHH
Confidence            88888888653      3677788888888888888888888887776542     222233488888888887754333


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 009143          284 WNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA  363 (542)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  363 (542)
                      .    +   .++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.      
T Consensus      1190 I----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------ 1247 (1630)
T 1xi4_A         1190 I----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------ 1247 (1630)
T ss_pred             H----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------
Confidence            2    2   356667777888888888888888888874         37888888888888888888888765      


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHH
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV-FTFNAL  442 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l  442 (542)
                      .+..+|..+..+|...|++..|......+.     .++..+..++..|.+.|.+++|+.+++..+..  .|.. ..|+-+
T Consensus      1248 ~n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftEL 1320 (1630)
T 1xi4_A         1248 NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTEL 1320 (1630)
T ss_pred             CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHH
Confidence            256788888888888888888877665432     36778889999999999999999999888763  3333 333333


Q ss_pred             HHHhhcccccccCChHHHHHHHHHHHhCCCCC------CHHHHHHHHHHHHhcCCHHHHHHHHHHH--------h--H-c
Q 009143          443 ILAETRGASCNLGHIHLALQLYDEMLRRGITP------DIITYTELIKGHCARGNMKEAEEVFAKI--------Q--T-L  505 (542)
Q Consensus       443 l~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p------~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~--~-~  505 (542)
                      ...++   -.+.+++.++.++|..-..  ++|      +...|.-++-.|.+.|+++.|....-+-        .  + .
T Consensus      1321 aiLya---Ky~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i 1395 (1630)
T 1xi4_A         1321 AILYS---KFKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDII 1395 (1630)
T ss_pred             HHHHH---hCCHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHh
Confidence            32221   3455667777777664433  233      4677999999999999999998322111        0  0 1


Q ss_pred             CCCCChhHHHHHHHHHHhcC---------------ChhHHHHHHHH
Q 009143          506 GLAIDHIPFRILKKRYRRMK---------------ESDKARDIHQK  536 (542)
Q Consensus       506 g~~~~~~~~~~l~~~~~~~g---------------~~~~A~~~~~~  536 (542)
                      ....++..|...+.-|...+               +.+++.+++.+
T Consensus      1396 ~kv~n~elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~~ 1441 (1630)
T 1xi4_A         1396 TKVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSK 1441 (1630)
T ss_pred             cccccHHHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHHH
Confidence            12346777777777777666               77777777663

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.73  E-value=6.9e-18  Score=172.49  Aligned_cols=120  Identities=11%  Similarity=0.174  Sum_probs=105.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009143          365 DQISYKTIIQGLCIHGDIVKAREFLLSMLE---KSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNA  441 (542)
Q Consensus       365 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  441 (542)
                      -..+|+++|++||+.|++++|.++|.+|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            456899999999999999999999988764   47889999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccccccCCh-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009143          442 LILAETRGASCNLGHI-HLALQLYDEMLRRGITPDIITYTELIKGHCAR  489 (542)
Q Consensus       442 ll~~~~~~~~~~~g~~-~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  489 (542)
                      +|.+     +|+.|+. ++|.++|++|.+.|+.||..+|++++.++.+.
T Consensus       206 LI~g-----lcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          206 ALQC-----MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHH-----HHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHH-----HHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            9987     6777874 78899999999999999999999888765554

>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=99.72  E-value=8.7e-14  Score=147.03  Aligned_cols=351  Identities=13%  Similarity=0.123  Sum_probs=230.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGT--VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      --...+++|...|.+.+|++++++..-.+.  .-+...-+.++....+. +..+..+..++...    .+   ..-+...
T Consensus       987 eVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~----~d---~~eIA~I 1058 (1630)
T 1xi4_A          987 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDN----YD---APDIANI 1058 (1630)
T ss_pred             HhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhh----cc---HHHHHHH
Confidence            336677888899999999999998884321  12334455566666665 45666555555431    11   3346677


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCH
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDK  277 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  277 (542)
                      +...|.+++|..+|++..     -.....+.++.   ..+++++|.++.+++         .+..+|..+..++.+.|++
T Consensus      1059 ai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv---------n~p~vWsqLAKAql~~G~~ 1121 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC---------NEPAVWSQLAKAQLQKGMV 1121 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCH
Confidence            778888888888888752     12222233322   667788888887765         4567788888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          278 FQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVL  357 (542)
Q Consensus       278 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  357 (542)
                      ++|.+.|.+.      .|...|..++.++.+.|++++|.+.|....+..  +++...+.++.+|++.+++++...+.   
T Consensus      1122 kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI--- 1190 (1630)
T 1xi4_A         1122 KEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI--- 1190 (1630)
T ss_pred             HHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---
Confidence            8888888553      367777888888888888888888888777653  33333445778888888877544332   


Q ss_pred             HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 009143          358 SKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVF  437 (542)
Q Consensus       358 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  437 (542)
                       +   .++...+..+...|...|++++|..+|..+         ..|..+..+|.+.|++++|.+.+++..      +..
T Consensus      1191 -~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~~ 1251 (1630)
T 1xi4_A         1191 -N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------STR 1251 (1630)
T ss_pred             -h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHH
Confidence             2   345566667888888888888888888875         368888888888888888888887763      346


Q ss_pred             HHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHH
Q 009143          438 TFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRIL  517 (542)
Q Consensus       438 ~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l  517 (542)
                      +|..+-.+     +...|++..|......+     ..++..+..++..|.+.|.+++|+.+++...... +-....|.-+
T Consensus      1252 aWkev~~a-----cve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftEL 1320 (1630)
T 1xi4_A         1252 TWKEVCFA-----CVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTEL 1320 (1630)
T ss_pred             HHHHHHHH-----HhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHH
Confidence            66665555     44557777776655432     2355566677777888888888888877665432 1223344334


Q ss_pred             HHHHH--hcCChhHHHHHHHH
Q 009143          518 KKRYR--RMKESDKARDIHQK  536 (542)
Q Consensus       518 ~~~~~--~~g~~~~A~~~~~~  536 (542)
                      ...|.  +-++..++.++|.+
T Consensus      1321 aiLyaKy~peklmEhlk~f~~ 1341 (1630)
T 1xi4_A         1321 AILYSKFKPQKMREHLELFWS 1341 (1630)
T ss_pred             HHHHHhCCHHHHHHHHHHHHH
Confidence            44433  23444444444443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.71  E-value=3.9e-15  Score=135.63  Aligned_cols=226  Identities=12%  Similarity=0.091  Sum_probs=173.4

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCC--C----HHhH
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSP--N----CATY  191 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~----~~~~  191 (542)
                      ...|..+...+...|++++|+..|+++++..  .+..++..+...+...|++++|.+.+++..+..+..  +    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4467788888888899999999999888876  678888888888889999999988888887654321  1    5778


Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                      ..+...+...|++++|...+++..+.  .|+.       ..+.+.|++++|.+.++++....+    .+...+..+...+
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~~~~  149 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVNP----EKAEEARLEGKEY  149 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCCH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcCc----chHHHHHHHHHHH
Confidence            88888888888888888888888774  3443       345566778888888888887665    6677788888888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEAS  351 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  351 (542)
                      ...|++++|...+++..+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus       150 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  227 (258)
T 3uq3_A          150 FTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASAL  227 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHH
Confidence            88888888888888887765 4567777778888888888888888888877763 334667777777777777777777


Q ss_pred             HHHHHHHHC
Q 009143          352 HFYGVLSKT  360 (542)
Q Consensus       352 ~~~~~~~~~  360 (542)
                      ..++...+.
T Consensus       228 ~~~~~a~~~  236 (258)
T 3uq3_A          228 ETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777776653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.70  E-value=3.2e-15  Score=132.44  Aligned_cols=199  Identities=13%  Similarity=0.004  Sum_probs=112.4

Q ss_pred             CChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 009143          221 PNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYN  300 (542)
Q Consensus       221 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  300 (542)
                      ++...+..+...+.+.|++++|...++++++..+    .+...+..+...+.+.|++++|...+++..+.. +.+...+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p----~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~   77 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENP----QDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYM   77 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS----SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            3445555555556666666666666666665554    555556666666666666666666666655544 34455555


Q ss_pred             HHHHHHHhC-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 009143          301 VLINGFCLN-----------GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISY  369 (542)
Q Consensus       301 ~li~~~~~~-----------~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  369 (542)
                      .+...+...           |++++|+..|++..+.. +-+...+..+...+...|++++|...|++..+..  .+...+
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~  154 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIR  154 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHH
Confidence            555555555           66666666666666652 2245556666666666666666666666666654  456666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 009143          370 KTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLML  428 (542)
Q Consensus       370 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (542)
                      ..+...|...|++++|...+++.++..+. +...+..+...+.+.|++++|...|++..
T Consensus       155 ~~la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          155 SALAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            66666666667777777777666665443 56666666666667777777766666543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.69  E-value=4.2e-15  Score=147.12  Aligned_cols=383  Identities=13%  Similarity=-0.013  Sum_probs=240.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCh---hHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDL---EKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       123 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      .+...+.+.|++++|.++|++..+.|   ++..+..+...|...|+.   ++|.+.|++..+.    +...+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35667788899999999999988875   445566677777777888   8999988888753    4556666666555


Q ss_pred             HcC-----ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChh---HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          200 RVN-----ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLG---DAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       200 ~~g-----~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                      ..+     ++++|+..|++..+.|.   ...+..|...|...+..+   ++.+.+......+      +......+...|
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g------~~~a~~~Lg~~y  151 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG------YPEAGLAQVLLY  151 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT------CTTHHHHHHHHH
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC------CHHHHHHHHHHH
Confidence            554     67899999999888663   236667777777665543   3455555554433      344667778888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG---DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ----  344 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~----  344 (542)
                      ...+.++++......+.+.-...++..+..|...|...|   +.++|++.|++..+.| .++...+..+...|...    
T Consensus       152 ~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~  230 (452)
T 3e4b_A          152 RTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGT  230 (452)
T ss_dssp             HHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSS
T ss_pred             HcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCC
Confidence            888755444444332222211233447888888888888   8899999999998887 45666556677777554    


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----C
Q 009143          345 GKLDEASHFYGVLSKTGVAPDQISYKTIIQG-L--CIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCG-----D  416 (542)
Q Consensus       345 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~  416 (542)
                      +++++|..+|+... .|   +...+..+... +  ...+++++|.+.|++..+.|   +...+..|...|. .|     +
T Consensus       231 ~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d  302 (452)
T 3e4b_A          231 PDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPAD  302 (452)
T ss_dssp             CCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCC
T ss_pred             CCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCC
Confidence            68899999998887 33   45566666666 3  45789999999999998875   6778888888887 55     8


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCH
Q 009143          417 LSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCA----RGNM  492 (542)
Q Consensus       417 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~  492 (542)
                      +++|...|++.. .|   +......+-..|. .+.....+.++|...|++..+.|.   ......|...|..    ..++
T Consensus       303 ~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~  374 (452)
T 3e4b_A          303 AKAAEAHFEKAV-GR---EVAADYYLGQIYR-RGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDP  374 (452)
T ss_dssp             HHHHHHHHHTTT-TT---CHHHHHHHHHHHH-TTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCH
T ss_pred             HHHHHHHHHHHh-CC---CHHHHHHHHHHHH-CCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCH
Confidence            999999998877 33   2333333322211 112234589999999999988763   3445566666664    4589


Q ss_pred             HHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          493 KEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       493 ~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      ++|..++++..+.|.. +.......+......++.++|.++.+++.+
T Consensus       375 ~~A~~~~~~A~~~g~~-~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          375 LNAYVFSQLAKAQDTP-EANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHHHTTCCH-HHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCH-HHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            9999999998887643 333332333333344566778777777654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.69  E-value=1.3e-14  Score=132.15  Aligned_cols=226  Identities=11%  Similarity=0.033  Sum_probs=136.7

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc----HHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD----VITS  264 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~  264 (542)
                      ..|..+...+...|++++|...|+++.+..  .+..++..+...+...|++++|.+.++++++..+ ...++    ..++
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~   82 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGR-EMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-HTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCc-ccccchHHHHHHH
Confidence            344455555555555555555555555544  4555555555555555566555555555554332 00001    4556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ  344 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~  344 (542)
                      ..+...+...|++++|...|++..+..  |+.       ..+...|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            666666666666666666666666542  332       23444566667777776666542 22345566666667777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 009143          345 GKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIR  424 (542)
Q Consensus       345 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  424 (542)
                      |++++|...++...+.. +.+..++..+...+...|++++|...++++++..+. +...|..+..++.+.|++++|...|
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            77777777777766653 234566677777777777777777777777765433 5667777777777777777777777


Q ss_pred             HHHHh
Q 009143          425 DLMLS  429 (542)
Q Consensus       425 ~~m~~  429 (542)
                      ++..+
T Consensus       231 ~~a~~  235 (258)
T 3uq3_A          231 DAART  235 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77665

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=5.4e-15  Score=130.95  Aligned_cols=194  Identities=15%  Similarity=0.078  Sum_probs=90.5

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 009143          155 THNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALC  234 (542)
Q Consensus       155 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  234 (542)
                      .+..+...+.+.|++++|...|++..+..| .+...+..+...+.+.|++++|+..+++..+.. +.+...+..+...+.
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~   84 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYV   84 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            333444444444444444444444443332 133334444444444444444444444443321 112333333444444


Q ss_pred             hc-----------CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          235 KK-----------GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       235 ~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..           |++++|...+++.++..+    .+..++..+...+...|++++|+..|++..+..  .++..+..+.
T Consensus        85 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           85 ALYRQAEDRERGKGYLEQALSVLKDAERVNP----RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HhhhhhhhhcccccCHHHHHHHHHHHHHhCc----ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            43           666666666666665554    455566666666666666666666666665554  4555566666


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVL  357 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  357 (542)
                      ..+...|++++|+..|+++.+.. +.+...+..+...+...|++++|...+++.
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            66666666666666666665542 224455555555666666666666555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.68  E-value=1.2e-14  Score=133.60  Aligned_cols=232  Identities=16%  Similarity=0.104  Sum_probs=105.5

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC--hHHHHHHHHHHHh
Q 009143          158 YLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPN--RVTHNILVHALCK  235 (542)
Q Consensus       158 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~  235 (542)
                      .....+...|++++|.+.|+++.+..|. +...+..+..++...|++++|++.+++..+.+..|+  ..+|..+...+..
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            3334444444444444444444443321 233444444444444444444444444443211111  1224444444555


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      .|++++|.+.++++++..+    .+..++..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|
T Consensus        87 ~~~~~~A~~~~~~a~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRDT----TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHST----TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccHHHHHHHHHHHHhcCc----ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555554443    344455555555555555555555555554442 33444444444222223355555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCC-CCCC------hhhHHHHHHHHHhcCCHHHH
Q 009143          316 FAYFCQMLKRGFLPDVITYNTLLNCLCKQGK---LDEASHFYGVLSKTG-VAPD------QISYKTIIQGLCIHGDIVKA  385 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~~~A  385 (542)
                      .+.|+++.+.. +.+...+..+...+...|+   +++|...+++..+.. ..|+      ..+|..+...|...|++++|
T Consensus       162 ~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            55555555442 2224444444555555554   444555555444321 0111      13444455555555555556


Q ss_pred             HHHHHHHHhCC
Q 009143          386 REFLLSMLEKS  396 (542)
Q Consensus       386 ~~~~~~~~~~~  396 (542)
                      .+.++++++..
T Consensus       241 ~~~~~~al~~~  251 (272)
T 3u4t_A          241 DAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            55555555544

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.65  E-value=7.3e-14  Score=126.85  Aligned_cols=201  Identities=12%  Similarity=0.035  Sum_probs=145.7

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      ...|..+...+...|++++|+..|+++.+.. +.+..++..+...|...|++++|.+.++++.+..+ .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            4567777788888888888888888887753 33566777788888888888888888888777654 356777777777


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          198 YCRVNELDKALHLFSTMANNGIRP-NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      +...|++++|.+.++++.+.+..| +...+..+...+...|++++|.+.++++++..+    .+..++..+...+...|+
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~g~  190 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR----NQPSVALEMADLLYKERE  190 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----CCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc----ccHHHHHHHHHHHHHcCC
Confidence            888888888888888776632233 345666677777777777777777777777655    556677777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.
T Consensus       191 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          191 YVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            777777777776654 455666677777777777777777777777665

>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=99.65  E-value=5.1e-14  Score=135.02  Aligned_cols=216  Identities=12%  Similarity=0.056  Sum_probs=126.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCC-hhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          119 RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGD-LEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       119 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      ..|+.+...+.+.|++++|+..++++++.. +-+..+|+.+...+...|+ +++|++.|+++.+..|. +...|..+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            456666666666677777777777666653 2245566666666666665 67777777666665553 56666666666


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh-cCC
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK-NGD  276 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~  276 (542)
                      +...|++++|+..|+++.+.. +-+...|..+..++.+.|++++|+..++++++.++    .+..+|+.+..++.+ .|.
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P----~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV----RNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCS
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHhcCc
Confidence            666666666666666666543 22456666666666666666666666666666655    566666666666666 444


Q ss_pred             HHHH-----HHHHHHHHHCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009143          277 KFQA-----LALWNDMFQKNIQTDIVAYNVLINGFCLNG--DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ  344 (542)
Q Consensus       277 ~~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~  344 (542)
                      .++|     +..+++.+... +-+...|..+...+...|  ++++|++.+.++ +. .+.+...+..+...|.+.
T Consensus       251 ~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~  322 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDM  322 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHH
Confidence            3554     35555555443 334455555555555544  355555555554 21 122344444454444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.65  E-value=8.5e-14  Score=127.98  Aligned_cols=237  Identities=9%  Similarity=0.022  Sum_probs=196.8

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC--HHhHHHHH
Q 009143          118 YRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN--CATYNAFI  195 (542)
Q Consensus       118 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li  195 (542)
                      +..+......+...|++++|+..|++.++.. +.+...+..+...|...|++++|.+.++++.+....++  ..+|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            3456677888999999999999999999874 23566899999999999999999999999988432222  33588999


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..+...|++++|++.|++..+.. +.+..++..+...+...|++++|.+.++++++..+    .+..++..+...+...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~l~~~~~~~~  156 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTT----TDPKVFYELGQAYYYNK  156 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSC----CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCC----CcHHHHHHHHHHHHHHH
Confidence            99999999999999999998863 34668899999999999999999999999998866    77888888884555566


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHHcC-CCCC------HHHHHHHHHHHHhcC
Q 009143          276 DKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD---ISSAFAYFCQMLKRG-FLPD------VITYNTLLNCLCKQG  345 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~A~~~~~~~~~~~-~~p~------~~~~~~li~~~~~~g  345 (542)
                      ++++|.+.|+++.+.. +.+...+..+...+...|+   +++|...++++.+.. -.|+      ...|..+...|...|
T Consensus       157 ~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  235 (272)
T 3u4t_A          157 EYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINR  235 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcC
Confidence            9999999999999875 5567888888888888888   888999998887642 1233      257788889999999


Q ss_pred             CHHHHHHHHHHHHHCC
Q 009143          346 KLDEASHFYGVLSKTG  361 (542)
Q Consensus       346 ~~~~A~~~~~~~~~~~  361 (542)
                      ++++|...+++..+..
T Consensus       236 ~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          236 DKVKADAAWKNILALD  251 (272)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHhcC
Confidence            9999999999998864

>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=99.64  E-value=7.7e-14  Score=133.78  Aligned_cols=251  Identities=13%  Similarity=0.047  Sum_probs=212.7

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC-hhhHHHHHHHHHHCCCCCChHHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE-LDKALHLFSTMANNGIRPNRVTHNILVH  231 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~l~~  231 (542)
                      ...|..+...+.+.|++++|++.++++++..|. +...|+.+..++...|+ +++|+..|+++.+.. +-+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            456788888899999999999999999998764 78899999999999997 999999999999864 336789999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-CC
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL-NG  310 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~  310 (542)
                      ++...|++++|+..++++++.++    .+..+|..+..++.+.|++++|+..++++++.+ +.+...|+.+..++.. .|
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP----~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~  249 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDA----KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTG  249 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHccCHHHHHHHHHHHHHhCc----cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcC
Confidence            99999999999999999999887    899999999999999999999999999999987 6788999999999999 66


Q ss_pred             CHHHH-----HHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC---
Q 009143          311 DISSA-----FAYFCQMLKRGFLPDVITYNTLLNCLCKQG--KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG---  380 (542)
Q Consensus       311 ~~~~A-----~~~~~~~~~~~~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---  380 (542)
                      ..++|     ++.|++..+.. +-+...|..+...+...|  ++++|.+.+.++ +. .+.+...+..+...|.+.|   
T Consensus       250 ~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~  326 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQ  326 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccc
Confidence            65777     58899988874 335778888888888888  689999999888 43 3446778888999998864   


Q ss_pred             ------CHHHHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhc
Q 009143          381 ------DIVKAREFLLSM-LEKSVVPEPHIWNVIIDGYGRC  414 (542)
Q Consensus       381 ------~~~~A~~~~~~~-~~~~~~~~~~~~~~li~~~~~~  414 (542)
                            ..++|+++++++ .+.++. ....|..+...+...
T Consensus       327 ~~~~~~~~~~A~~~~~~l~~~~DP~-r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          327 CDNKEDILNKALELCEILAKEKDTI-RKEYWRYIGRSLQSK  366 (382)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTTCGG-GHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHH
Confidence                  358999999999 676543 556777777766543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.64  E-value=8.7e-14  Score=123.73  Aligned_cols=202  Identities=13%  Similarity=0.056  Sum_probs=129.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      ++..|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|.+.++++.+..+ .+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHH
Confidence            44566777777777777777777777777653 23456667777777777777777777777766544 35566666677


Q ss_pred             HHHHc-CChhhHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          197 GYCRV-NELDKALHLFSTMANNGIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       197 ~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      .+... |++++|...++++.+.+..|+ ...+..+...+...|++++|.+.++++++..+    .+...+..+...+.+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~  160 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP----QFPPAFKELARTKMLA  160 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCchHHHHHHHHHHHc
Confidence            77777 777777777777665222222 45566666666666777777777666666554    4556666666666666


Q ss_pred             CCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          275 GDKFQALALWNDMFQKNIQ-TDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      |++++|...++++.+.. + .+...+..+...+...|+.++|..+++.+.+.
T Consensus       161 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          161 GQLGDADYYFKKYQSRV-EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             TCHHHHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            66666666666666543 2 45555555666666666666666666666543

>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=99.64  E-value=1.8e-13  Score=124.31  Aligned_cols=198  Identities=12%  Similarity=-0.003  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      .+..+...+...|++++|.+.++++++..+    .+..++..+...+...|++++|.+.++++.+.. +.+...+..+..
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~  113 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEIDP----SSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCC----ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHH
Confidence            334444444444555555555544444433    344445555555555555555555555544433 234445555555


Q ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 009143          305 GFCLNGDISSAFAYFCQMLKRGFLP-DVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIV  383 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  383 (542)
                      .+...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
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            5555555555555555554421122 23444455555555555555555555555432 223445555555566666666


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          384 KAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       384 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      +|...++++.+..+. +...+..+...+...|++++|.+.++++.+
T Consensus       193 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          193 PARQYYDLFAQGGGQ-NARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHHHTTSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            666666665554332 455555556666666666666666666655

>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=99.63  E-value=1.2e-12  Score=120.53  Aligned_cols=225  Identities=15%  Similarity=0.027  Sum_probs=149.6

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL----NGDISSAFAYFCQMLKRGFLPDVITY  334 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~  334 (542)
                      .+..++..+...+...|++++|...|++..+.   .+..++..+...+..    .+++++|+..|++..+.+   +...+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            45667777777777778888888888777763   355667777777777    777778887777777764   56667


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 009143          335 NTLLNCLCK----QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI----HGDIVKAREFLLSMLEKSVVPEPHIWNV  406 (542)
Q Consensus       335 ~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~  406 (542)
                      ..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            777777777    777777777777777654   55666677777776    777777777777777654   4556666


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccc----cCChHHHHHHHHHHHhCCCCCCHHH
Q 009143          407 IIDGYGR----CGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCN----LGHIHLALQLYDEMLRRGITPDIIT  478 (542)
Q Consensus       407 li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~  478 (542)
                      +...|..    .+++++|...|++..+.+   +...+..+-..     +..    .+++++|...+++..+.+   +...
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~-----~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a  220 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNM-----YHHGEGATKNFKEALARYSKACELE---NGGG  220 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH-----HHHTCSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH-----HHcCCCCCccHHHHHHHHHHHHhCC---CHHH
Confidence            6666666    677777777777766643   22333333322     333    566667776666666643   2455


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHhHcC
Q 009143          479 YTELIKGHCA----RGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       479 ~~~li~~~~~----~g~~~~A~~~~~~m~~~g  506 (542)
                      +..+...|..    .+++++|.+.+++..+.|
T Consensus       221 ~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          221 CFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            5566666666    666666666666666654

>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=99.63  E-value=1.4e-11  Score=125.98  Aligned_cols=412  Identities=10%  Similarity=0.047  Sum_probs=289.9

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCC---hhHHHHHHHHHhhCCC-CCCHHhH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGD---LEKADHVIREMSEMRP-SPNCATY  191 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~~  191 (542)
                      .|..+|..++..+.+.+.++.+..+|++++.. .+.....|..-+..-.+.|.   ++.+.++|++.+...+ .|++..|
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            68889999999999999999999999999987 45567788888888888888   9999999999988652 3788899


Q ss_pred             HHHHHHHHHcCCh--------hhHHHHHHHHHH-CCC-CCC-hHHHHHHHHHHH---------hcCChhHHHHHHHHHHh
Q 009143          192 NAFITGYCRVNEL--------DKALHLFSTMAN-NGI-RPN-RVTHNILVHALC---------KKGLLGDAVKFLGEVLA  251 (542)
Q Consensus       192 ~~li~~~~~~g~~--------~~A~~~~~~m~~-~g~-~p~-~~~~~~l~~~~~---------~~g~~~~a~~~~~~~~~  251 (542)
                      ...+....+.++.        +.+.++|+.... .|. .++ ...|...+....         ..++++.+.++|+.++.
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            9888876665554        334477777654 465 554 456766665443         23457789999999986


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHh-------------cCCHHHHHHHHHHHHHC--CC----C-----------C-----C-
Q 009143          252 DDDGKATSDVITSTILMDSYFK-------------NGDKFQALALWNDMFQK--NI----Q-----------T-----D-  295 (542)
Q Consensus       252 ~~~~~~~~~~~~~~~l~~~~~~-------------~g~~~~a~~~~~~~~~~--~~----~-----------~-----~-  295 (542)
                      ... .  ....+|......--.             ..+++.|...+.++...  ++    +           |     + 
T Consensus       223 iP~-~--~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~  299 (679)
T 4e6h_A          223 QPM-D--CLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDV  299 (679)
T ss_dssp             SCC-S--SHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCH
T ss_pred             Ccc-H--HHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHH
Confidence            432 1  222333322221111             11234445555443221  11    1           1     0 


Q ss_pred             --HHHHHHHHHHHHhCC-------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCC
Q 009143          296 --IVAYNVLINGFCLNG-------DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEAS-HFYGVLSKTGVAPD  365 (542)
Q Consensus       296 --~~~~~~li~~~~~~~-------~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~-~~~~~~~~~~~~~~  365 (542)
                        ...|...+..--..+       ..+.+..+|+++... ++-....|...+..+...|+.++|. .+++..... ++.+
T Consensus       300 ~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s  377 (679)
T 4e6h_A          300 QQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNS  377 (679)
T ss_dssp             HHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTC
T ss_pred             HHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCC
Confidence              134555554433322       134466788888876 3557788888888888899999996 999999875 4556


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---------CCC------------HHHHHHHHHHHHhcCChHHHHHHH
Q 009143          366 QISYKTIIQGLCIHGDIVKAREFLLSMLEKSV---------VPE------------PHIWNVIIDGYGRCGDLSNAFSIR  424 (542)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---------~~~------------~~~~~~li~~~~~~g~~~~A~~~~  424 (542)
                      ...+...+...-+.|++++|.++|+++++...         .|+            ...|...+....+.|+.+.|..+|
T Consensus       378 ~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf  457 (679)
T 4e6h_A          378 AVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIF  457 (679)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            66777788888899999999999999986410         132            346888888888899999999999


Q ss_pred             HHHHhC-C-CCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          425 DLMLSF-G-VSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKI  502 (542)
Q Consensus       425 ~~m~~~-~-~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  502 (542)
                      .++.+. + ..+......+.+.-      ...++.+.|.++|+..++. .+-+...|...++.....|+.+.|..+|++.
T Consensus       458 ~~A~~~~~~~~~~lyi~~A~lE~------~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lfera  530 (679)
T 4e6h_A          458 GKCRRLKKLVTPDIYLENAYIEY------HISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESS  530 (679)
T ss_dssp             HHHHHTGGGSCTHHHHHHHHHHH------TTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCCChHHHHHHHHHHH------HhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            999885 2 22333444444432      2235699999999999985 2335667778888888899999999999999


Q ss_pred             hHcCCCC--ChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          503 QTLGLAI--DHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       503 ~~~g~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      ......+  ....|..+++--.+.|+.+.+.++.+++++.
T Consensus       531 l~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          531 IDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK  570 (679)
T ss_dssp             TTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8864321  3467888888889999999999999999764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.62  E-value=4.7e-14  Score=129.86  Aligned_cols=220  Identities=12%  Similarity=-0.068  Sum_probs=111.9

Q ss_pred             CChhhHHHHHHHHHHCCC---CCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH
Q 009143          202 NELDKALHLFSTMANNGI---RPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF  278 (542)
Q Consensus       202 g~~~~A~~~~~~m~~~g~---~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  278 (542)
                      |++++|+..++++.+...   +.+..++..+...+...|++++|.+.++++++..+    .+..++..+...+...|+++
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP----DMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHTTCHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC----CcHHHHHHHHHHHHHccCHH
Confidence            444555555555544321   01233444455555555555555555555555443    44555555555555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          279 QALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      +|.+.++++.+.. +.+..++..+...+...|++++|...|+++.+.  .|+.......+..+...|++++|...+....
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            5555555555443 334455555555555555555555555555554  2333233333333344556666666665554


Q ss_pred             HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          359 KTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVP---EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       359 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      ... +++...+ .++..+...++.++|...+.+..+.....   +...+..+...|.+.|++++|...|+++.+.
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            432 2222222 24444555555566666666555432110   1355666666666666666666666666653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.62  E-value=9.2e-14  Score=137.45  Aligned_cols=352  Identities=13%  Similarity=0.042  Sum_probs=235.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCCh---hhHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 009143          158 YLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNEL---DKALHLFSTMANNGIRPNRVTHNILVHALC  234 (542)
Q Consensus       158 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  234 (542)
                      .+...+.+.|++++|.+.|++..+.+   +...+..|...|...|+.   ++|...|++..+.    ++..+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            36677888999999999999998865   334455667777778888   9999999998754    5556667777566


Q ss_pred             hcC-----ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          235 KKG-----LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF---QALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       235 ~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      ..+     +.++|.+.+++..+.+.    ++  .+..|...|...+..+   ++.+.+......|   ++..+..|...|
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~----~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y  151 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGE----GN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLY  151 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTC----SS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHH
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCC----HH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            555     78899999999999765    44  7777888888766543   4555555555544   455677788888


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc----
Q 009143          307 CLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG---KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIH----  379 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~----  379 (542)
                      ...+.++++......+.+.-...++..+..+...|...|   +.++|...|....+.| +++...+..+...|...    
T Consensus       152 ~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~  230 (452)
T 3e4b_A          152 RTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGT  230 (452)
T ss_dssp             HHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSS
T ss_pred             HcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCC
Confidence            888865555444333333222234448888999999999   9999999999999987 34555556677777554    


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-H--HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCC
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNVIIDG-Y--GRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGH  456 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~  456 (542)
                      +++++|.+.|++.. .   -++..+..+... +  ...+++++|...|++..+.|   +...+..+-..|. .+.....+
T Consensus       231 ~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d  302 (452)
T 3e4b_A          231 PDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPAD  302 (452)
T ss_dssp             CCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCC
T ss_pred             CCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCC
Confidence            79999999999988 3   367778888877 4  56899999999999999876   3333333333321 11122349


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHh----cCChh
Q 009143          457 IHLALQLYDEMLRRGITPDIITYTELIKGHCA----RGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRR----MKESD  528 (542)
Q Consensus       457 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~----~g~~~  528 (542)
                      +++|.+.|++.. .   -+...+..|...|..    ..++++|..+|++..+.|.   ......|...|..    ..+.+
T Consensus       303 ~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~  375 (452)
T 3e4b_A          303 AKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPL  375 (452)
T ss_dssp             HHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHH
T ss_pred             HHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHH
Confidence            999999999888 3   356777778877776    4499999999999988753   4455677777764    46899


Q ss_pred             HHHHHHHHHhhcC
Q 009143          529 KARDIHQKWLLRN  541 (542)
Q Consensus       529 ~A~~~~~~~l~~~  541 (542)
                      +|..+|+++.+.+
T Consensus       376 ~A~~~~~~A~~~g  388 (452)
T 3e4b_A          376 NAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHCC
Confidence            9999999986543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.62  E-value=1.6e-14  Score=133.05  Aligned_cols=222  Identities=14%  Similarity=0.015  Sum_probs=119.5

Q ss_pred             HhcCChHHHHHHHHHHHhCCCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChh
Q 009143          129 CLGGKIGTALWLRRKMIQKGTV---PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELD  205 (542)
Q Consensus       129 ~~~g~~~~A~~~~~~m~~~g~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  205 (542)
                      ...|++++|+..++++++....   .+..++..+...+...|++++|.+.|+++.+..+ .+..+|..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHH
Confidence            3456777777777777665211   1345566666667777777777777777666554 25566666666666667777


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWN  285 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  285 (542)
                      +|...|+++.+.. +.+..++..+...+.+.|++++|.+.++++++..+    .+. .....+..+...|++++|...++
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~----~~~-~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP----NDP-FRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCH-HHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC----CCh-HHHHHHHHHHHhcCHHHHHHHHH
Confidence            7777666666542 22455666666666666666666666666666543    222 22222233344456666666665


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          286 DMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLP---DVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       286 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      +..... +++...+. ++..+...++.++|++.+.+..+.....   +...+..+...+.+.|++++|...++...+
T Consensus       169 ~~~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          169 QHFEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HHHHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            554432 22322222 4444455555555555555544321000   023344444444444444444444444444

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.62  E-value=2.6e-13  Score=120.59  Aligned_cols=200  Identities=13%  Similarity=0.077  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..+..+...+...|++++|.+.++++++..+    .+..++..+...+...|++++|.+.++++.+.. +.+..++..+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSDP----KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc----cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            3344444444444555555555444444433    334444445555555555555555555544432 23444455555


Q ss_pred             HHHHhC-CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 009143          304 NGFCLN-GDISSAFAYFCQMLKRGFLPD-VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGD  381 (542)
Q Consensus       304 ~~~~~~-~~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  381 (542)
                      ..+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            555555 555555555555544211222 3444445555555555555555555554432 2234445555555555555


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          382 IVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       382 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      +++|...++++.+..+..+...+..+...+...|+.++|..+++.+.+
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            555555555555443312444455555555555555555555555543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.62  E-value=4.1e-14  Score=127.61  Aligned_cols=202  Identities=14%  Similarity=0.076  Sum_probs=136.8

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .....|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|.+.++++.+..+ .+...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHH
Confidence            345567777778888888888888888888753 33567777888888888888888888888877654 3667777788


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++++..+    .+...+..+...+.+.|
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~  173 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE----NDTEARFQFGMCLANEG  173 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHcC
Confidence            88888888888888888877653 33566777777788888888888888888877665    56677777777788888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          276 DKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      ++++|.+.++++.+.. +.+..++..+...+...|++++|.+.++++.+.
T Consensus       174 ~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          174 MLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            8888888887777654 445667777777777777777777777777765

>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=99.62  E-value=2e-12  Score=118.97  Aligned_cols=224  Identities=15%  Similarity=0.023  Sum_probs=153.6

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHH----cCChhHHHHHHHHHhhCCCCCCHHhHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCK----IGDLEKADHVIREMSEMRPSPNCATYN  192 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  192 (542)
                      ++.++..+...+...|++++|+..|++..+.   .+..++..+...|..    .|++++|.+.|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4556677777777777888888777777763   245666777777777    777777777777777654   566677


Q ss_pred             HHHHHHHH----cCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCCCcHHHH
Q 009143          193 AFITGYCR----VNELDKALHLFSTMANNGIRPNRVTHNILVHALCK----KGLLGDAVKFLGEVLADDDGKATSDVITS  264 (542)
Q Consensus       193 ~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  264 (542)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|.+.+++..+.+      +...+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~------~~~a~  149 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN------DGDGC  149 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT------CHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC------cHHHH
Confidence            77777777    777777777777777654   56667777777777    777777777777777643      34456


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 009143          265 TILMDSYFK----NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL----NGDISSAFAYFCQMLKRGFLPDVITYNT  336 (542)
Q Consensus       265 ~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~  336 (542)
                      ..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..
T Consensus       150 ~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  223 (273)
T 1ouv_A          150 TILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFN  223 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHH
Confidence            666666666    677777777777776653   45566666666766    677777777777766653   2455556


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHCC
Q 009143          337 LLNCLCK----QGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       337 li~~~~~----~g~~~~A~~~~~~~~~~~  361 (542)
                      +...|..    .+++++|...++...+.+
T Consensus       224 l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          224 LGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            6666666    666777777766666544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.61  E-value=7.5e-14  Score=125.89  Aligned_cols=196  Identities=15%  Similarity=0.098  Sum_probs=73.2

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 009143          155 THNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALC  234 (542)
Q Consensus       155 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  234 (542)
                      .|..+...+...|++++|...|+++.+..+ .+...+..+...+...|++++|...++++.+.. +.+..++..+...+.
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  102 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYV  102 (243)
T ss_dssp             -----------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHH
Confidence            334444444444444444444444444332 234444444444444444444444444444331 123334444444444


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHH
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISS  314 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  314 (542)
                      ..|++++|.+.++++.+..+    .+...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       103 ~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAGM----ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHTC----CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HhccHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            44444444444444444333    333344444444444444444444444443332 2233334444444444444444


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          315 AFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       315 A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      |...++++.+.. +.+..++..+...+...|++++|...++.+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  220 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAI  220 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            444444433331 1223333333334444444444444444333

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.57  E-value=8e-14  Score=136.58  Aligned_cols=275  Identities=16%  Similarity=0.107  Sum_probs=149.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHHcCChhHHHHHHHHHhhCC-----CCCCHHh
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDV----LTHNYLVNELCKIGDLEKADHVIREMSEMR-----PSPNCAT  190 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~  190 (542)
                      .+..+...+...|++++|+..|+++++.... +.    ..+..+...|...|++++|.+.+++..+..     ......+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3444555566666666666666666654211 22    345555556666666666666665554320     0112334


Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHHCCCC-CChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          191 YNAFITGYCRVNELDKALHLFSTMANNGIR-PNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       191 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      +..+...|...|++++|...+++..+.... .+                              .+    ....++..+..
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~------------------------------~~----~~~~~~~~l~~  174 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGD------------------------------RL----SEGRALYNLGN  174 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC------------------------------HH----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhc------------------------------hH----HHHHHHHHHHH
Confidence            444555555555555555555544332000 00                              00    22334555555


Q ss_pred             HHHhcCC-----------------HHHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Q 009143          270 SYFKNGD-----------------KFQALALWNDMFQK----N-IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF  327 (542)
Q Consensus       270 ~~~~~g~-----------------~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  327 (542)
                      .|...|+                 +++|.+.+++..+.    + .+....++..+...+...|++++|+..+++..+...
T Consensus       175 ~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  254 (411)
T 4a1s_A          175 VYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAR  254 (411)
T ss_dssp             HHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            5555555                 55555555544321    1 011234566666677777777777777776654310


Q ss_pred             C-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 009143          328 L-PD----VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA-----PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSV  397 (542)
Q Consensus       328 ~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  397 (542)
                      . ++    ..++..+...|...|++++|...+++..+....     ....++..+...|...|++++|...+++.++...
T Consensus       255 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  334 (411)
T 4a1s_A          255 EFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQ  334 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            0 11    225666677777777777777777666543110     1134566667777777777777777777654311


Q ss_pred             -----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          398 -----VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       398 -----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                           .....++..+...|.+.|++++|...|++..+
T Consensus       335 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          335 ELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                 11134666777778888888888888877766

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=7.9e-14  Score=136.21  Aligned_cols=278  Identities=17%  Similarity=0.084  Sum_probs=182.2

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHHcCChhHHHHHHHHHhhC----CCC-C
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD----VLTHNYLVNELCKIGDLEKADHVIREMSEM----RPS-P  186 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-~  186 (542)
                      .....+......+...|++++|+..|+++++.... +    ..++..+...+...|++++|...+++..+.    +.. .
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            45556777788888999999999999998886322 2    356778888888999999999988876542    111 1


Q ss_pred             CHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCC-CCC----hHHHHHHHHHHHhcCC--------------------hhH
Q 009143          187 NCATYNAFITGYCRVNELDKALHLFSTMANNGI-RPN----RVTHNILVHALCKKGL--------------------LGD  241 (542)
Q Consensus       187 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~l~~~~~~~g~--------------------~~~  241 (542)
                      ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            245677788888888999999988887755310 011    3467777788888888                    888


Q ss_pred             HHHHHHHHHhCCCC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhCCCHHH
Q 009143          242 AVKFLGEVLADDDG--KATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI-QTD----IVAYNVLINGFCLNGDISS  314 (542)
Q Consensus       242 a~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~~~~  314 (542)
                      |.+.+.+.+.....  ..+....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            88877776543110  0012345677777788888888888887777664310 011    2366777777777778777


Q ss_pred             HHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----hhhHHHHHHHHHhcCCHHH
Q 009143          315 AFAYFCQMLKRGF-LPD----VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA-PD----QISYKTIIQGLCIHGDIVK  384 (542)
Q Consensus       315 A~~~~~~~~~~~~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~g~~~~  384 (542)
                      |...+++..+... .++    ..++..+...+...|++++|...+++..+.... .+    ..++..+...|...|++++
T Consensus       246 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  325 (406)
T 3sf4_A          246 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQ  325 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            7777777654310 011    345666667777777777777777665542100 11    3355566666666777777


Q ss_pred             HHHHHHHHHh
Q 009143          385 AREFLLSMLE  394 (542)
Q Consensus       385 A~~~~~~~~~  394 (542)
                      |.+.+++..+
T Consensus       326 A~~~~~~al~  335 (406)
T 3sf4_A          326 AMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7776666554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.56  E-value=9.4e-14  Score=136.10  Aligned_cols=280  Identities=16%  Similarity=0.108  Sum_probs=160.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCC
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDV----ITSTILMDSYFKNGDKFQALALWNDMFQK----N-IQT  294 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~-~~~  294 (542)
                      ..+..+...+...|++++|...++++++..+    .+.    .++..+...+...|++++|...+++..+.    + .+.
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~----~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  124 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGT----EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLG  124 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC----SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc----cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchH
Confidence            3444556666777777777777777777654    232    45666677777777777777777666542    1 122


Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC----C-CCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHH
Q 009143          295 DIVAYNVLINGFCLNGDISSAFAYFCQMLKRG----F-LPDVITYNTLLNCLCKQGK----------LDEASHFYGVLSK  359 (542)
Q Consensus       295 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~----~-~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~  359 (542)
                      ...++..+...+...|++++|...++++.+..    - .....++..+...|...|+          .++|...      
T Consensus       125 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~------  198 (411)
T 4a1s_A          125 EAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEA------  198 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHH------
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHH------
Confidence            33455566666666666666666666654421    0 1112344444445555555          0000000      


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-C
Q 009143          360 TGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEK----S-VVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGV-S  433 (542)
Q Consensus       360 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~  433 (542)
                                            +++|.+.+++..+.    + .......+..+...|...|++++|...+++..+... .
T Consensus       199 ----------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          199 ----------------------LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc
Confidence                                  44444444433221    0 011223556666666667777777766666654210 0


Q ss_pred             CC----HHHHHHHHHHhhcccccccCChHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          434 SN----VFTFNALILAETRGASCNLGHIHLALQLYDEMLRR----GIT-PDIITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       434 p~----~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~----g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      ++    ...+..+...     +...|++++|...+++..+.    +.. ....++..+...|...|++++|...+++..+
T Consensus       257 ~~~~~~~~~~~~la~~-----~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          257 GDRAAERRANSNLGNS-----HIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             TCHHHHHHHHHHHHHH-----HHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-----HHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            11    1123333332     55667777777777776652    100 1145677888889999999999999988775


Q ss_pred             cC----C-CCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          505 LG----L-AIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       505 ~g----~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      ..    . .....++..+...|...|++++|.++++++++.
T Consensus       332 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          332 IAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            31    1 112346778888899999999999999988764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.55  E-value=1.3e-13  Score=134.65  Aligned_cols=279  Identities=18%  Similarity=0.152  Sum_probs=173.6

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC---HHhHHHHHHHHHHcCChhhHHHHHHHHHHC----CCCC-C
Q 009143          151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN---CATYNAFITGYCRVNELDKALHLFSTMANN----GIRP-N  222 (542)
Q Consensus       151 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~  222 (542)
                      +....+......+...|++++|...|+++.+..+...   ..++..+...+...|++++|...+++....    +-.| .
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            4555667778888899999999999999888654311   357788888899999999999998876543    2122 2


Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--CCCcHHHHHHHHHHHHhcCC--------------------HHHH
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK--ATSDVITSTILMDSYFKNGD--------------------KFQA  280 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~--------------------~~~a  280 (542)
                      ..++..+...+...|++++|...+++++...+..  ......++..+...+...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            4567778888888899999988888877643201  00124477778888888888                    7777


Q ss_pred             HHHHHHHHHC----C-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHH
Q 009143          281 LALWNDMFQK----N-IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF-LPD----VITYNTLLNCLCKQGKLDEA  350 (542)
Q Consensus       281 ~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~p~----~~~~~~li~~~~~~g~~~~A  350 (542)
                      .+.+++..+.    + .+....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            7777765532    1 011234566667777777777777777776654310 111    22556666666677777777


Q ss_pred             HHHHHHHHHCCCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCChHHH
Q 009143          351 SHFYGVLSKTGVA-PD----QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV-PE----PHIWNVIIDGYGRCGDLSNA  420 (542)
Q Consensus       351 ~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~g~~~~A  420 (542)
                      ...+++..+.... ++    ..++..+...|...|++++|...+++..+.... .+    ..++..+...|...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            7666665432100 01    334555555666666666666666655432110 01    33455555555566666666


Q ss_pred             HHHHHHHHh
Q 009143          421 FSIRDLMLS  429 (542)
Q Consensus       421 ~~~~~~m~~  429 (542)
                      ...+++..+
T Consensus       327 ~~~~~~al~  335 (406)
T 3sf4_A          327 MHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            655555443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.54  E-value=2.2e-13  Score=129.14  Aligned_cols=269  Identities=18%  Similarity=0.169  Sum_probs=133.9

Q ss_pred             HHHHHcCChhHHHHHHHHHhhCCCCCC---HHhHHHHHHHHHHcCChhhHHHHHHHHHHC----CCCC-ChHHHHHHHHH
Q 009143          161 NELCKIGDLEKADHVIREMSEMRPSPN---CATYNAFITGYCRVNELDKALHLFSTMANN----GIRP-NRVTHNILVHA  232 (542)
Q Consensus       161 ~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~  232 (542)
                      ..+...|++++|...|+++.+..+...   ...+..+...+...|++++|.+.+++....    +..| ...++..+...
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~   92 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNT   92 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            334444444444444444444322100   133444444444444444444444443221    1011 12334444555


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCC--CCCcHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHC
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGK--ATSDVITSTILMDSYFKNGD--------------------KFQALALWNDMFQK  290 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~--------------------~~~a~~~~~~~~~~  290 (542)
                      +...|++++|.+.+.+.++..+..  ......++..+...+...|+                    +++|.+.+++....
T Consensus        93 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~  172 (338)
T 3ro2_A           93 LKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSL  172 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            555555555555555444321100  00112355555566666666                    56666555554321


Q ss_pred             ----C-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          291 ----N-IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF-LP----DVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       291 ----~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                          + .+....++..+...+...|++++|.+.+++..+... .+    ...++..+...+...|++++|...+++..+.
T Consensus       173 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  252 (338)
T 3ro2_A          173 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  252 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                1 011234566666667777777777777766654310 01    1235666666777777777777777665542


Q ss_pred             CCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          361 GVA-PD----QISYKTIIQGLCIHGDIVKAREFLLSMLEKSV-----VPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       361 ~~~-~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      ... .+    ..++..+...+...|++++|...+++..+...     .....++..+...|.+.|++++|...+++..+
T Consensus       253 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          253 ARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            100 11    34555666666677777777777766654211     01133556666677777777777777776665

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.53  E-value=2.2e-13  Score=129.10  Aligned_cols=275  Identities=16%  Similarity=0.099  Sum_probs=155.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCCCH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD----VITSTILMDSYFKNGDKFQALALWNDMFQK----N-IQTDI  296 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~-~~~~~  296 (542)
                      +......+...|++++|...++++++..+    .+    ...+..+...+...|++++|.+.+++..+.    + .+...
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGT----EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC----SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCc----ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            34445555566666666666666665543    22    244555555556666666666655554332    1 01113


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 009143          297 VAYNVLINGFCLNGDISSAFAYFCQMLKRGF-LPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQG  375 (542)
Q Consensus       297 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  375 (542)
                      .++..+...+...|++++|...+++..+... .++..                               ....++..+...
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-------------------------------~~~~~~~~l~~~  132 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKV-------------------------------GEARALYNLGNV  132 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH-------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCch-------------------------------HHHHHHHHHHHH
Confidence            3444455555555555555555555433210 00100                               001234444444


Q ss_pred             HHhcCC--------------------HHHHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          376 LCIHGD--------------------IVKAREFLLSMLEK----S-VVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       376 ~~~~g~--------------------~~~A~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                      +...|+                    +++|.+.+++....    + .......+..+...+...|++++|...+++..+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  212 (338)
T 3ro2_A          133 YHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  212 (338)
T ss_dssp             HHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            444444                    55555555444321    1 0112345666777777777777777777776542


Q ss_pred             CC-CCC----HHHHHHHHHHhhcccccccCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          431 GV-SSN----VFTFNALILAETRGASCNLGHIHLALQLYDEMLRR----GITP-DIITYTELIKGHCARGNMKEAEEVFA  500 (542)
Q Consensus       431 ~~-~p~----~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~  500 (542)
                      .. .++    ...+..+...     +...|++++|...+++..+.    +..+ ...++..+...|...|++++|...++
T Consensus       213 ~~~~~~~~~~~~~~~~l~~~-----~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (338)
T 3ro2_A          213 AKEFGDKAAERRAYSNLGNA-----YIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHL  287 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH-----HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhcCChHHHHHHHHHHHHH-----HHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            10 111    1133333333     56678888888888877652    1111 14577888999999999999999999


Q ss_pred             HHhHc----CC-CCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          501 KIQTL----GL-AIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       501 ~m~~~----g~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      +..+.    +- .....++..+...|...|++++|.++++++++.
T Consensus       288 ~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          288 KHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            88763    11 111447778899999999999999999999764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.52  E-value=2.5e-12  Score=110.51  Aligned_cols=165  Identities=16%  Similarity=0.089  Sum_probs=82.1

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHA  232 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  232 (542)
                      +.+|..+...|.+.|++++|++.|++..+..|. +..++..+..+|.+.|++++|...++...... +.+...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            344445555555555555555555555444432 44445555555555555555555555544432 1233444444444


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  312 (542)
                      +...++++.+.+.+.+.....+    .+..++..+...+.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~----~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNT----VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCc----cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCH
Confidence            5555555555555555554443    444455555555555555555555555555443 33444555555555555555


Q ss_pred             HHHHHHHHHHHH
Q 009143          313 SSAFAYFCQMLK  324 (542)
Q Consensus       313 ~~A~~~~~~~~~  324 (542)
                      ++|++.|++..+
T Consensus       158 ~~A~~~~~~al~  169 (184)
T 3vtx_A          158 DEAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            555555555544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.52  E-value=2.3e-11  Score=113.91  Aligned_cols=217  Identities=10%  Similarity=0.007  Sum_probs=160.6

Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHH-------cCCh-------hHHHHHHHHHhh-CCCCCCHHhHHHHHHHHH
Q 009143          135 GTALWLRRKMIQKGTVPDVLTHNYLVNELCK-------IGDL-------EKADHVIREMSE-MRPSPNCATYNAFITGYC  199 (542)
Q Consensus       135 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~~~~-~~~~~~~~~~~~li~~~~  199 (542)
                      ++|+.+|++.+... +.++..|..++..+..       .|++       ++|..+|++..+ ..| .+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            67888888888752 3467778777777653       4776       888888888887 344 36678888888888


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCC-hH-HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHH-hcCC
Q 009143          200 RVNELDKALHLFSTMANNGIRPN-RV-THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYF-KNGD  276 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~-~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~  276 (542)
                      +.|++++|.++|++..+.  .|+ .. .|..++..+.+.|++++|.++|+++++..+    .+...|...+.... ..|+
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p----~~~~~~~~~a~~~~~~~~~  184 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR----TRHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT----CCTHHHHHHHHHHHHTSCC
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC----CCHHHHHHHHHHHHHHcCC
Confidence            888888998888888874  443 33 788888888888888888888888888765    44555554444432 2588


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHhcCCHHHHHHH
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG-FLP--DVITYNTLLNCLCKQGKLDEASHF  353 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-~~p--~~~~~~~li~~~~~~g~~~~A~~~  353 (542)
                      .++|.++|++..+.. +.+...|..++..+.+.|++++|..+|++..... +.|  ....|..++....+.|+.+.|..+
T Consensus       185 ~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~  263 (308)
T 2ond_A          185 KSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKV  263 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            888888888887654 4467778888888888888888888888888753 344  355677777777778888888888


Q ss_pred             HHHHHHC
Q 009143          354 YGVLSKT  360 (542)
Q Consensus       354 ~~~~~~~  360 (542)
                      ++++.+.
T Consensus       264 ~~~a~~~  270 (308)
T 2ond_A          264 EKRRFTA  270 (308)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.52  E-value=1.7e-12  Score=125.93  Aligned_cols=300  Identities=11%  Similarity=-0.014  Sum_probs=186.5

Q ss_pred             HHhcCChHHHHHHHHHHHhC--CCCCC--hhhHHHHHHH--HHHcCChhHHH-----------HHHHHHhhCCCCCCH--
Q 009143          128 LCLGGKIGTALWLRRKMIQK--GTVPD--VLTHNYLVNE--LCKIGDLEKAD-----------HVIREMSEMRPSPNC--  188 (542)
Q Consensus       128 ~~~~g~~~~A~~~~~~m~~~--g~~p~--~~~~~~li~~--~~~~g~~~~A~-----------~~~~~~~~~~~~~~~--  188 (542)
                      +.+.+++++|..+++++.+.  ....|  ...|..++..  ..-.+.++.+.           +.++.+.......+.  
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            35689999999999888664  22223  3333333322  22234444444           666665432111010  


Q ss_pred             --HhHHHHHHHHHHcCChhhHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC---CC
Q 009143          189 --ATYNAFITGYCRVNELDKALHLFSTMANN----GIRP-NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK---AT  258 (542)
Q Consensus       189 --~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~  258 (542)
                        ..+......+...|++++|...+++..+.    +-.+ ...++..+...+...|++++|.+.+.+.++.....   .+
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  181 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI  181 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH
Confidence              11222556677889999999999888664    1111 23567788888888999999988888887643211   01


Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc----CC-C
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQK----N-IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR----GF-L  328 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~-~  328 (542)
                      ....+++.+...|...|++++|...+++..+.    + .+....++..+...|...|++++|++.+++..+.    +. +
T Consensus       182 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          182 RLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence            23457788888888888888888888877643    1 0111246777888888888888888888887762    22 2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCChhhHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCH
Q 009143          329 PDVITYNTLLNCLCKQGKLDEASHFYGVLSKT----GVAPDQISYKTIIQGLCIHGD---IVKAREFLLSMLEKSVVPEP  401 (542)
Q Consensus       329 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~~~~  401 (542)
                      ....++..+...+.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|+.++++...  .....
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~  339 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLE  339 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHH
Confidence            23556777788888888888888888776543    111112234556666666777   6666666665411  11123


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          402 HIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      ..+..+...|...|++++|...|++..+
T Consensus       340 ~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          340 DFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4566677777777888888777777654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.51  E-value=1.4e-12  Score=126.46  Aligned_cols=232  Identities=8%  Similarity=-0.103  Sum_probs=125.7

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC-----ChhhHH
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKR----GFLP-DVITYNTLLNCLCKQGKLDEASHFYGVLSKTGV-AP-----DQISYK  370 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~-----~~~~~~  370 (542)
                      ....+...|++++|+..|++..+.    +-.+ ...++..+...|...|++++|...+.+..+... .+     ...+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            344455566666666666665542    1011 124455555666666666666666655543210 01     123455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCCH-HHHH
Q 009143          371 TIIQGLCIHGDIVKAREFLLSMLEKSVV-PE----PHIWNVIIDGYGRCGDLSNAFSIRDLMLSF----GVSSNV-FTFN  440 (542)
Q Consensus       371 ~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~-~~~~  440 (542)
                      .+...|...|++++|.+.+++.++.... ++    ..++..+...|...|++++|...+++..+.    +..|+. .++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            5556666666666666666665532110 11    135666666667777777777766666551    221322 3333


Q ss_pred             HHHHHhhcccccccCChHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHhHcCCCCChhH
Q 009143          441 ALILAETRGASCNLGHIHLALQLYDEMLRR----GITPDIITYTELIKGHCARGN---MKEAEEVFAKIQTLGLAIDHIP  513 (542)
Q Consensus       441 ~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~----g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~~~~~~  513 (542)
                      .+-..     +...|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++...  .+.....
T Consensus       269 ~l~~~-----~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~~  341 (383)
T 3ulq_A          269 LITQI-----HYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLEDF  341 (383)
T ss_dssp             HHHHH-----HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHHH
T ss_pred             HHHHH-----HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHHH
Confidence            33333     55667777777777666542    111112334566677777777   5666666555421  1122345


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          514 FRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       514 ~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      +..+...|...|++++|.++++++++.
T Consensus       342 ~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          342 AIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            667777788888888888888877653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.50  E-value=6.8e-12  Score=107.70  Aligned_cols=173  Identities=12%  Similarity=-0.039  Sum_probs=125.7

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .+..+|..+...|.+.|++++|++.|++..+.. |-+..++..+...+.+.|++++|+..+....... +.+...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            456677777777777777777777777777665 5567777777777777777777777777776653 33456666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 009143          339 NCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLS  418 (542)
Q Consensus       339 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  418 (542)
                      ..+...++++.|...+....+.. +.+...+..+...|.+.|++++|++.+++.++..+. +..+|..+..+|.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHH
Confidence            77777778888887777776653 335667777777788888888888888888776654 6777888888888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHH
Q 009143          419 NAFSIRDLMLSFGVSSNVF  437 (542)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~~  437 (542)
                      +|.+.|++.++.  .|+..
T Consensus       159 ~A~~~~~~al~~--~p~~a  175 (184)
T 3vtx_A          159 EAVKYFKKALEK--EEKKA  175 (184)
T ss_dssp             HHHHHHHHHHHT--THHHH
T ss_pred             HHHHHHHHHHhC--CccCH
Confidence            888888887763  45543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.50  E-value=2.2e-11  Score=114.05  Aligned_cols=217  Identities=10%  Similarity=0.017  Sum_probs=101.3

Q ss_pred             hHHHHHHHHHhhCCCCCCHHhHHHHHHHHHH-------cCCh-------hhHHHHHHHHHHCCCCC-ChHHHHHHHHHHH
Q 009143          170 EKADHVIREMSEMRPSPNCATYNAFITGYCR-------VNEL-------DKALHLFSTMANNGIRP-NRVTHNILVHALC  234 (542)
Q Consensus       170 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~  234 (542)
                      ++|..+|++..+..| .+...|..++..+..       .|++       ++|..+|++..+. +.| +...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHH
Confidence            466666666666544 355666666665543       3553       5555555555542 122 3345555555555


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hCCCH
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVI-TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC-LNGDI  312 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~  312 (542)
                      +.|++++|.++|+++++..+    .+.. +|..++..+.+.|++++|..+|++..+.. +.+...|...+.... ..|++
T Consensus       111 ~~~~~~~A~~~~~~al~~~p----~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~  185 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIED----IDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSS----SCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCH
T ss_pred             hcCCHHHHHHHHHHHHhccc----cCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCH
Confidence            55555555555555555443    2222 45555555555555555555555555443 222223322221111 13444


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC--ChhhHHHHHHHHHhcCCHHHHHHHH
Q 009143          313 SSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG-VAP--DQISYKTIIQGLCIHGDIVKAREFL  389 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~A~~~~  389 (542)
                      ++|..+|++..+.. +.+...|..++..+.+.|++++|..+|++..... .+|  ....|..++..+.+.|+.++|..++
T Consensus       186 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~  264 (308)
T 2ond_A          186 SVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVE  264 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55555444444431 1233444444444444444444444444444431 122  1233444444444444444444444


Q ss_pred             HHHHh
Q 009143          390 LSMLE  394 (542)
Q Consensus       390 ~~~~~  394 (542)
                      +++.+
T Consensus       265 ~~a~~  269 (308)
T 2ond_A          265 KRRFT  269 (308)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.49  E-value=1.2e-12  Score=130.30  Aligned_cols=214  Identities=14%  Similarity=0.046  Sum_probs=172.1

Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCh-hHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHH
Q 009143          132 GKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDL-EKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHL  210 (542)
Q Consensus       132 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  210 (542)
                      +.+++++..++...... +.+...+..+...+...|++ ++|++.|++..+..+ .+...|..+..+|.+.|++++|.+.
T Consensus        82 ~~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34667777777766542 34677888888889999999 999999999888765 3678888999999999999999999


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHHHhc---------CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc-------
Q 009143          211 FSTMANNGIRPNRVTHNILVHALCKK---------GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN-------  274 (542)
Q Consensus       211 ~~~m~~~g~~p~~~~~~~l~~~~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  274 (542)
                      |++..+.  .|+...+..+...+...         |++++|.+.++++++..+    .+...|..+...|...       
T Consensus       160 ~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~~~~~~~~  233 (474)
T 4abn_A          160 FSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV----LDGRSWYILGNAYLSLYFNTGQN  233 (474)
T ss_dssp             HHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHHHHhhccc
Confidence            9998875  46778888888888888         889999999999988776    7788888888888888       


Q ss_pred             -CCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 009143          275 -GDKFQALALWNDMFQKNIQ---TDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEA  350 (542)
Q Consensus       275 -g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  350 (542)
                       |++++|.+.|++..+.. +   .+...|..+..+|...|++++|.+.|++..+.. +.+...+..+...+...|++++|
T Consensus       234 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eA  311 (474)
T 4abn_A          234 PKISQQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSL  311 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence             88888888888888764 3   477888888888888888888888888887763 33456677777778888877777


Q ss_pred             HHHHH
Q 009143          351 SHFYG  355 (542)
Q Consensus       351 ~~~~~  355 (542)
                      ...+.
T Consensus       312 i~~~~  316 (474)
T 4abn_A          312 LESKG  316 (474)
T ss_dssp             HHHTT
T ss_pred             HHHhc
Confidence            76543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.47  E-value=2.2e-12  Score=128.33  Aligned_cols=214  Identities=12%  Similarity=-0.013  Sum_probs=155.4

Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCh-hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLL-GDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALA  282 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  282 (542)
                      +++++..++..... .+.+...+..+...+...|++ ++|++.++++++..+    .+..+|..+...|.+.|++++|.+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p----~~~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP----ELVEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC----CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            45555666655443 223566677777777777777 777777777777665    667777778888888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhC---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--------C
Q 009143          283 LWNDMFQKNIQTDIVAYNVLINGFCLN---------GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ--------G  345 (542)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~li~~~~~~---------~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~--------g  345 (542)
                      .|++..+..  |+...+..+...+...         |++++|++.|++..+.. +.+...|..+..+|...        |
T Consensus       159 ~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g  235 (474)
T 4abn_A          159 CFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPK  235 (474)
T ss_dssp             HHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccc
Confidence            888777663  5567777777777777         88888888888877763 33567777777777777        7


Q ss_pred             CHHHHHHHHHHHHHCCCC--CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 009143          346 KLDEASHFYGVLSKTGVA--PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSI  423 (542)
Q Consensus       346 ~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  423 (542)
                      ++++|...|++..+....  .+...+..+...|...|++++|.+.|++..+..+. +...+..+..++...|++++|.+.
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~  314 (474)
T 4abn_A          236 ISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLES  314 (474)
T ss_dssp             HHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHH
Confidence            788888888887775310  36777888888888888888888888888776654 667778888888888888887765


Q ss_pred             HHH
Q 009143          424 RDL  426 (542)
Q Consensus       424 ~~~  426 (542)
                      +.+
T Consensus       315 ~~~  317 (474)
T 4abn_A          315 KGK  317 (474)
T ss_dssp             TTT
T ss_pred             hcc
Confidence            543

>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=99.47  E-value=1.1e-09  Score=112.24  Aligned_cols=398  Identities=7%  Similarity=-0.018  Sum_probs=267.8

Q ss_pred             hHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC---hhhHHHH
Q 009143          134 IGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE---LDKALHL  210 (542)
Q Consensus       134 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~  210 (542)
                      ..+.+..|++.+... +-|..+|..++..+.+.+.++.+..+|+++...-| .....|...+..-.+.+.   ++.+..+
T Consensus        48 ~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP-~~~~lW~~Yi~~E~~~~~~~~~~~v~~l  125 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFP-LMANIWCMRLSLEFDKMEELDAAVIEPV  125 (679)
T ss_dssp             CSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTC--CCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhhCCcchHHHHHHH
Confidence            445555666666654 45899999999999999999999999999998765 477889999998888888   9999999


Q ss_pred             HHHHHHCC-CCCChHHHHHHHHHHHhcCCh--------hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHH---------
Q 009143          211 FSTMANNG-IRPNRVTHNILVHALCKKGLL--------GDAVKFLGEVLADDDGKATSDVITSTILMDSYF---------  272 (542)
Q Consensus       211 ~~~m~~~g-~~p~~~~~~~l~~~~~~~g~~--------~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---------  272 (542)
                      |++..... .+|++..|...+....+.++.        +...++|+.++..-..-.......|...+....         
T Consensus       126 feRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~e  205 (679)
T 4e6h_A          126 LARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFE  205 (679)
T ss_dssp             HHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHH
Confidence            99998763 137888888877766665554        334577777765322101145678888776544         


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHH---HHHHHH----------hCCCHHHHHHHHHHHHHc--CC----C-----
Q 009143          273 KNGDKFQALALWNDMFQKNIQTDIVAYNV---LINGFC----------LNGDISSAFAYFCQMLKR--GF----L-----  328 (542)
Q Consensus       273 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~---li~~~~----------~~~~~~~A~~~~~~~~~~--~~----~-----  328 (542)
                      ..++++.+.++|++++......-..+|..   +.....          ...+++.|...+.++...  ++    +     
T Consensus       206 eq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~  285 (679)
T 4e6h_A          206 EQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQ  285 (679)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTT
T ss_pred             HHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhcccccccc
Confidence            34457889999999985321112233322   221110          012334455555543321  11    1     


Q ss_pred             ------C-----C---HHHHHHHHHHHHhcC-------CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHH-
Q 009143          329 ------P-----D---VITYNTLLNCLCKQG-------KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAR-  386 (542)
Q Consensus       329 ------p-----~---~~~~~~li~~~~~~g-------~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~-  386 (542)
                            |     +   ...|...+.---..+       ..+.+..+|++.... .+-....|...+..+...|+.++|. 
T Consensus       286 ~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r  364 (679)
T 4e6h_A          286 ATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVIT  364 (679)
T ss_dssp             CCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHH
T ss_pred             chhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHH
Confidence                  1     0   123444443222221       123456678887775 3457788888888888889999997 


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCC---------CCCC------------HHHHHHHHHH
Q 009143          387 EFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFG---------VSSN------------VFTFNALILA  445 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---------~~p~------------~~~~~~ll~~  445 (542)
                      +++++.....+ .+...|-..+....+.|++++|.++|+++.+..         -.|+            ...|...+..
T Consensus       365 ~il~rAi~~~P-~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~  443 (679)
T 4e6h_A          365 KYLKLGQQCIP-NSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNT  443 (679)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHH
Confidence            99999987543 467778888999999999999999999988631         0132            1245555543


Q ss_pred             hhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhc
Q 009143          446 ETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCAR-GNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRM  524 (542)
Q Consensus       446 ~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~  524 (542)
                           ..+.|+++.|.++|.++++.-..+....|...+..-.+. ++++.|..+|+...+. .+.+...|...++.....
T Consensus       444 -----erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~  517 (679)
T 4e6h_A          444 -----MKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYV  517 (679)
T ss_dssp             -----HHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHH
T ss_pred             -----HHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhC
Confidence                 345688999999999999851112334454433333444 4599999999999886 344677788899988999


Q ss_pred             CChhHHHHHHHHHhhcC
Q 009143          525 KESDKARDIHQKWLLRN  541 (542)
Q Consensus       525 g~~~~A~~~~~~~l~~~  541 (542)
                      |+.+.|..+|+++++..
T Consensus       518 ~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          518 NEESQVKSLFESSIDKI  534 (679)
T ss_dssp             TCHHHHHHHHHHHTTTS
T ss_pred             CCHHHHHHHHHHHHHhc
Confidence            99999999999998653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.45  E-value=5.6e-13  Score=124.97  Aligned_cols=173  Identities=14%  Similarity=0.115  Sum_probs=131.6

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhC------C
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQK-------GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM------R  183 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~  183 (542)
                      +..++..+...+...|++++|+..++++.+.       .......++..+...|...|++++|.+.+++..+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567888999999999999999999998873       22334567888899999999999999999988764      1


Q ss_pred             C-CCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHC------CC-CCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCC--
Q 009143          184 P-SPNCATYNAFITGYCRVNELDKALHLFSTMANN------GI-RPNRVTHNILVHALCKKGLLGDAVKFLGEVLADD--  253 (542)
Q Consensus       184 ~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--  253 (542)
                      . .....++..+...+...|++++|...++++.+.      +- +....++..+...+...|++++|.+.+++++...  
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 224567888888999999999999999888654      21 2234567778888888889988888888887651  


Q ss_pred             --CCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          254 --DGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       254 --~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                        ....+....++..+...+...|++++|.+.++++.+
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              001114456778888888888888888888888775

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=6.9e-13  Score=124.31  Aligned_cols=238  Identities=17%  Similarity=0.118  Sum_probs=108.8

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHC-------CCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCC-----CCCC
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANN-------GIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADD-----DGKA  257 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----~~~~  257 (542)
                      ++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|.+.+++++...     . ..
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-~~  107 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK-DH  107 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC-CC
Confidence            3444444444444444444444444331       111122334444444444444444444444444321     0 00


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-----
Q 009143          258 TSDVITSTILMDSYFKNGDKFQALALWNDMFQK------N-IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR-----  325 (542)
Q Consensus       258 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----  325 (542)
                      +....++..+...+...|++++|...+++..+.      + .+....++..+...+...|++++|++.++++.+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            133445555555555555555555555555432      1 1122344555666666666666666666665543     


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCChhhHHHHHH-------HHHhcCCHHHHHHHH
Q 009143          326 -GFLP-DVITYNTLLNCLCKQGKLDEASHFYGVLSKT-------GVAPDQISYKTIIQ-------GLCIHGDIVKAREFL  389 (542)
Q Consensus       326 -~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~li~-------~~~~~g~~~~A~~~~  389 (542)
                       +..| ...++..+...+...|++++|...++++.+.       ...+..........       .+...+.+.++...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             1111 2334555666666666666666666665542       11111111111111       222233344444455


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          390 LSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       390 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      ........ ....++..+..+|.+.|++++|.+.|++..+
T Consensus       268 ~~~~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          268 KACKVDSP-TVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ------CH-HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhcCCCCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            55544322 2456677777888888888888888777665

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.43  E-value=6.9e-11  Score=114.00  Aligned_cols=162  Identities=15%  Similarity=0.067  Sum_probs=76.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHH
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKATSDV----ITSTILMDSYFKNGDKFQALALWNDMFQKNI-QTD----IVAY  299 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~  299 (542)
                      ....+...|++++|...+++.+...+ .  .+.    .+++.+...+...|++++|.+.+++...... ..+    ..++
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~-~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELP-P--GWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCC-T--TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCC-C--CchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            34445556666666666666665443 1  111    2345555556666666666666665543210 011    1223


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC----Chhh
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLKR----GFL--P-DVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAP----DQIS  368 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~~----~~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~  368 (542)
                      ..+...+...|++++|.+.+++..+.    +..  | ....+..+...+...|++++|...+++........    ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            44455555556666666555555432    111  1 12233444445555555555555555544321110    1123


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          369 YKTIIQGLCIHGDIVKAREFLLSML  393 (542)
Q Consensus       369 ~~~li~~~~~~g~~~~A~~~~~~~~  393 (542)
                      +..+...+...|++++|...+++..
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~  201 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLE  201 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444555555555555443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.41  E-value=5e-11  Score=115.22  Aligned_cols=311  Identities=12%  Similarity=-0.032  Sum_probs=186.8

Q ss_pred             CChhhHHHHHHHH--HhcCChHHHHHHHHHHHhC--CCCCC--hhhHHHHHHH--HHHcCChhHHH---------HHHHH
Q 009143          116 TDYRRHVAVIRDL--CLGGKIGTALWLRRKMIQK--GTVPD--VLTHNYLVNE--LCKIGDLEKAD---------HVIRE  178 (542)
Q Consensus       116 ~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~--g~~p~--~~~~~~li~~--~~~~g~~~~A~---------~~~~~  178 (542)
                      |+...-+.+-..|  ...+++++|..+++++.+.  ....|  ...|-.++..  ..-.+.+..+.         +.++.
T Consensus         8 ~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~   87 (378)
T 3q15_A            8 PSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLET   87 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHH
Confidence            4444455555565  6888999999998887653  22222  3333333332  11123333333         55555


Q ss_pred             HhhCCCCCC-H---HhHHHHHHHHHHcCChhhHHHHHHHHHHCCC-CCC----hHHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          179 MSEMRPSPN-C---ATYNAFITGYCRVNELDKALHLFSTMANNGI-RPN----RVTHNILVHALCKKGLLGDAVKFLGEV  249 (542)
Q Consensus       179 ~~~~~~~~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~  249 (542)
                      +.....+.+ .   ..+......+...|++++|+..|++..+... .++    ..++..+...+...|+++.|...+.+.
T Consensus        88 i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~a  167 (378)
T 3q15_A           88 IETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQA  167 (378)
T ss_dssp             HHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            543111101 0   1223344556778888888888888765411 122    356777888888888888888888887


Q ss_pred             HhCCCCCC---CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Q 009143          250 LADDDGKA---TSDVITSTILMDSYFKNGDKFQALALWNDMFQK----NIQ-TDIVAYNVLINGFCLNGDISSAFAYFCQ  321 (542)
Q Consensus       250 ~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~  321 (542)
                      ++......   .....+++.+...|...|++++|.+.+++..+.    +.+ ....++..+...|...|++++|++.+++
T Consensus       168 l~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~  247 (378)
T 3q15_A          168 LDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQK  247 (378)
T ss_dssp             HHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            76432110   013456778888888888888888888777652    111 1234667777888888888888888887


Q ss_pred             HHH-----cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---C-ChhhHHHHHHHHHhcCC---HHHHHHHH
Q 009143          322 MLK-----RGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA---P-DQISYKTIIQGLCIHGD---IVKAREFL  389 (542)
Q Consensus       322 ~~~-----~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~-~~~~~~~li~~~~~~g~---~~~A~~~~  389 (542)
                      ..+     .. +....++..+...+.+.|++++|...+++..+....   + ....+..+...+...++   +.+|+..+
T Consensus       248 al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~  326 (378)
T 3q15_A          248 AAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYF  326 (378)
T ss_dssp             HHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            776     32 223566777777888888888888888777664211   1 12234444445555666   66666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          390 LSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       390 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      ++..  ........+..+...|...|++++|...|++..+
T Consensus       327 ~~~~--~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          327 EKKN--LHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhCC--ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6521  1111223456677777778888888777777654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.40  E-value=1.7e-10  Score=111.25  Aligned_cols=202  Identities=13%  Similarity=0.030  Sum_probs=93.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCC--C--CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC----CCHHHH
Q 009143          228 ILVHALCKKGLLGDAVKFLGEVLADDDG--K--ATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQ----TDIVAY  299 (542)
Q Consensus       228 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~  299 (542)
                      .+...+...|++++|.+.+++.+.....  .  .+....++..+...+...|++++|...+++.......    ....++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            3444444455555555554444432100  0  0012234444555555555555555555554432110    112344


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC--HHHHH----HHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhhHH
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLKRGFLPD--VITYN----TLLNCLCKQGKLDEASHFYGVLSKTGVAPD---QISYK  370 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~----~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~  370 (542)
                      ..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+.........+.   ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            5555555566666666666655543211111  11111    122234556666666666655543221111   11334


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009143          371 TIIQGLCIHGDIVKAREFLLSMLEK----SVVPEP-HIWNVIIDGYGRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       371 ~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (542)
                      .+...+...|++++|...+++....    +..++. ..+..+..++...|+.++|...+++...
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4555566666666666666665432    111111 2445556666667777777776666554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.40  E-value=2.1e-10  Score=110.78  Aligned_cols=232  Identities=10%  Similarity=-0.015  Sum_probs=136.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC----CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-----CC-CHHH
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQKNI-QT----DIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF-----LP-DVIT  333 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~----~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-----~p-~~~~  333 (542)
                      ......+...|++++|...+++..+... .+    ...++..+...|...|+++.|...+.+..+...     .+ ...+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            3345556667777777777777664310 01    234566677777777777777777777654210     11 1345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 009143          334 YNTLLNCLCKQGKLDEASHFYGVLSKT----GVA-PDQISYKTIIQGLCIHGDIVKAREFLLSMLE-----KSVVPEPHI  403 (542)
Q Consensus       334 ~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~  403 (542)
                      ++.+...|...|++++|...+.+..+.    +.+ ....++..+...|...|++++|.+.+++.++     ..+. ...+
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~  263 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKV  263 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHH
Confidence            666777777777777777777666542    111 1123566677777777888888888777776     4433 3666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC---CCCHHHHHHHHHHhhcccccccCC---hHHHHHHHHHHHhCCCCCC-H
Q 009143          404 WNVIIDGYGRCGDLSNAFSIRDLMLSFGV---SSNVFTFNALILAETRGASCNLGH---IHLALQLYDEMLRRGITPD-I  476 (542)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~~~~g~---~~~A~~~~~~~~~~g~~p~-~  476 (542)
                      +..+...+.+.|++++|...+++..+...   .|........+..    .+...++   +++|+..+++.   +..|+ .
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~----ly~~~~~~~~~~~al~~~~~~---~~~~~~~  336 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQA----VYKETVDERKIHDLLSYFEKK---NLHAYIE  336 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHH----HHSSSCCHHHHHHHHHHHHHT---TCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HHhCCCcHHHHHHHHHHHHhC---CChhHHH
Confidence            77777888888888888888877766211   1222221122222    1444555   55555555542   11222 2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          477 ITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       477 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      ..+..+...|...|++++|...+++..+
T Consensus       337 ~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          337 ACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3445566666666666666666666544

>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=99.36  E-value=8.3e-11  Score=100.64  Aligned_cols=160  Identities=11%  Similarity=0.031  Sum_probs=71.3

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 009143          157 NYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKK  236 (542)
Q Consensus       157 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  236 (542)
                      ..+...+...|++++|.+.++++.+..+ .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHh
Confidence            3344444444444444444444443322 233444444444444444444444444444331 12334444444444444


Q ss_pred             CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 009143          237 GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       237 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  316 (542)
                      |++++|.+.++++....+    .+...+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|.
T Consensus        90 ~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEANP----INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             TCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCc----HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            444444444444444333    334444444444444444444444444444432 233444444444444444444444


Q ss_pred             HHHHHHH
Q 009143          317 AYFCQML  323 (542)
Q Consensus       317 ~~~~~~~  323 (542)
                      +.++++.
T Consensus       165 ~~~~~~~  171 (186)
T 3as5_A          165 PHFKKAN  171 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=99.36  E-value=1.2e-10  Score=103.76  Aligned_cols=197  Identities=10%  Similarity=-0.017  Sum_probs=159.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      .|+..|......+...|++++|+..|++.++....++...+..+...+...|++++|.+.+++..+..|. +...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4667888899999999999999999999998754467888888999999999999999999999987763 678899999


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCCh-------HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCC--cHHHHHH
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNR-------VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATS--DVITSTI  266 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~~~  266 (542)
                      .++...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|.+.++++++..+    .  +..++..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~~~  158 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTS----KKWKTDALYS  158 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSC----HHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCC----CcccHHHHHH
Confidence            99999999999999999998753 2234       4578888889999999999999999999876    6  6788899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Q 009143          267 LMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG  326 (542)
Q Consensus       267 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  326 (542)
                      +...+...|+     ..++++...+ ..+...|....  ....+.+++|+..|++..+..
T Consensus       159 l~~~~~~~~~-----~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          159 LGVLFYNNGA-----DVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHH-----HHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            9988876553     3455555543 33444554443  234567899999999999873

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.34  E-value=6.8e-11  Score=122.47  Aligned_cols=167  Identities=12%  Similarity=0.038  Sum_probs=109.1

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .+..+++.|...+.+.|++++|++.|++.++.. +-+..+|..+..+|.+.|++++|++.|++..+.. +-+...|..+.
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            455666666666666666666666666666654 3456666666666666666666666666666652 22455666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 009143          339 NCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLS  418 (542)
Q Consensus       339 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  418 (542)
                      .++...|++++|.+.|++..+.. +-+...+..+...|.+.|++++|++.|++.++..+. +...|..+..++...|+++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHH
Confidence            66677777777777776666643 224556666777777777777777777777766544 5666777777777777777


Q ss_pred             HHHHHHHHHHh
Q 009143          419 NAFSIRDLMLS  429 (542)
Q Consensus       419 ~A~~~~~~m~~  429 (542)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77776666554

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.34  E-value=4.8e-11  Score=123.60  Aligned_cols=166  Identities=14%  Similarity=0.054  Sum_probs=116.5

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      ++.+|+.|...+.+.|++++|+..|++.++.. +-+..+|..+...|.+.|++++|++.|++..+..+. +...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45577777777777777777777777777653 224566777777777777777777777777776542 5667777777


Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      +|.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++++|++.++++++..+    .+..++..+...+...|+
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P----~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKP----DFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----CCHHHHHHHHHHHHHTTC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CChHHHhhhhhHHHhccc
Confidence            7777777777777777776642 22456677777777777777777777777777665    566677777777777777


Q ss_pred             HHHHHHHHHHHHH
Q 009143          277 KFQALALWNDMFQ  289 (542)
Q Consensus       277 ~~~a~~~~~~~~~  289 (542)
                      +++|.+.+++..+
T Consensus       161 ~~~A~~~~~kal~  173 (723)
T 4gyw_A          161 WTDYDERMKKLVS  173 (723)
T ss_dssp             CTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777766654

>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=99.34  E-value=1.6e-10  Score=98.76  Aligned_cols=164  Identities=16%  Similarity=0.090  Sum_probs=106.4

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      ..+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+..+    .+..++..+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a   83 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP----DNVKVATVLG   83 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC----CCHHHHHHHH
Confidence            445566666777777777777777665542 23556666666777777777777777777766554    5566666677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  348 (542)
                      ..+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|+++
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  161 (186)
T 3as5_A           84 LTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHE  161 (186)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHH
Confidence            77777777777777777666553 4456666666666666777777777776666553 334556666666666666666


Q ss_pred             HHHHHHHHHHH
Q 009143          349 EASHFYGVLSK  359 (542)
Q Consensus       349 ~A~~~~~~~~~  359 (542)
                      +|...++...+
T Consensus       162 ~A~~~~~~~~~  172 (186)
T 3as5_A          162 EALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666554

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.32  E-value=2.2e-10  Score=102.04  Aligned_cols=197  Identities=11%  Similarity=-0.032  Sum_probs=158.1

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHH
Q 009143          151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILV  230 (542)
Q Consensus       151 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  230 (542)
                      .++..+......+...|++++|.+.|++..+..+.++...+..+..++...|++++|+..+++..+.. +.+..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            35678888999999999999999999999988765677788789999999999999999999998863 23567888999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCCCcH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHH
Q 009143          231 HALCKKGLLGDAVKFLGEVLADDDGKATSDV-------ITSTILMDSYFKNGDKFQALALWNDMFQKNIQT--DIVAYNV  301 (542)
Q Consensus       231 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~  301 (542)
                      ..+...|++++|.+.+++.++..+    .+.       .+|..+...+...|++++|.+.|++..+.. +.  +...|..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~  158 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVP----GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYS  158 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCC----CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHH
Confidence            999999999999999999999876    555       568889999999999999999999999874 33  4677888


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      +...+...|     ...++++...+ ..+...|....  ....+.+++|...+++..+..
T Consensus       159 l~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          159 LGVLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            888876543     44456665553 33444454443  234567899999999998863

>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=99.26  E-value=5.3e-11  Score=109.58  Aligned_cols=229  Identities=14%  Similarity=0.081  Sum_probs=146.1

Q ss_pred             hcCChHHHHHHHHHHHhC-------CCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhC------CC-CCCHHhHHHHH
Q 009143          130 LGGKIGTALWLRRKMIQK-------GTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEM------RP-SPNCATYNAFI  195 (542)
Q Consensus       130 ~~g~~~~A~~~~~~m~~~-------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~-~~~~~~~~~li  195 (542)
                      ..|++++|+..+++.++.       ..+....++..+...|...|++++|.+.++++.+.      +. .....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            456666666666665542       11223556777888888888888888888877653      11 12355777888


Q ss_pred             HHHHHcCChhhHHHHHHHHHHC------C-CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhC-----CCCCCCCcHHH
Q 009143          196 TGYCRVNELDKALHLFSTMANN------G-IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLAD-----DDGKATSDVIT  263 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~------g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~  263 (542)
                      ..|...|++++|.+.+++....      . .+....++..+...+...|++++|.+.++++++.     +. ..+....+
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~  171 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGP-DDPNVAKT  171 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCT-TCHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCC-CCHHHHHH
Confidence            8888888888888888887654      1 1223566778888888888888888888888775     11 11145677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-------CC-CCCHHHHHHHHHHHHhCCCH------HHHHHHHHHHHHcCCCC
Q 009143          264 STILMDSYFKNGDKFQALALWNDMFQK-------NI-QTDIVAYNVLINGFCLNGDI------SSAFAYFCQMLKRGFLP  329 (542)
Q Consensus       264 ~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~-~~~~~~~~~li~~~~~~~~~------~~A~~~~~~~~~~~~~p  329 (542)
                      +..+...+...|++++|...+++..+.       .. ......|..+.......+..      ..+...++.... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888888899999999999888888753       11 12223333333333333322      222222221111 1122


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          330 DVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       330 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      ...++..+...|...|++++|...+++..+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3456778888999999999999999887653

>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=99.24  E-value=1.2e-10  Score=107.17  Aligned_cols=230  Identities=12%  Similarity=0.026  Sum_probs=163.1

Q ss_pred             HHcCChhHHHHHHHHHhhC-------CCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHC------CC-CCChHHHHHH
Q 009143          164 CKIGDLEKADHVIREMSEM-------RPSPNCATYNAFITGYCRVNELDKALHLFSTMANN------GI-RPNRVTHNIL  229 (542)
Q Consensus       164 ~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~-~p~~~~~~~l  229 (542)
                      ...|++++|.+.+++..+.       ..+....++..+...|...|++++|+..+++..+.      +- +....++..+
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            3467888888777776652       22234678889999999999999999999998754      21 2235678889


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCC-----CCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-CCCCHH
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADD-----DGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK------N-IQTDIV  297 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~-~~~~~~  297 (542)
                      ...+...|++++|.+.+.+++...     + ..+....++..+...+...|++++|...+++..+.      + .+....
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGK-FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCC-CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999998751     1 11256788999999999999999999999998865      1 133466


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHc-------CCCCCH-HHHHHHHHHHHhcCCHHHH------HHHHHHHHHCCCC
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKR-------GFLPDV-ITYNTLLNCLCKQGKLDEA------SHFYGVLSKTGVA  363 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~-------~~~p~~-~~~~~li~~~~~~g~~~~A------~~~~~~~~~~~~~  363 (542)
                      ++..+...+...|++++|...++++.+.       ...+.. ..+..+...+...+....+      ...+..... ..+
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  249 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSP  249 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCH
Confidence            7889999999999999999999998764       122222 2333333333333332222      222221111 112


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEK  395 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  395 (542)
                      ....++..+...|...|++++|...+++.++.
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            23457888999999999999999999998764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.23  E-value=4.8e-09  Score=95.38  Aligned_cols=181  Identities=14%  Similarity=0.125  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          207 ALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWND  286 (542)
Q Consensus       207 A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  286 (542)
                      |+..|++....+ .++..++..+..++...|++++|++++.+.+..++..  .+...+..++..+.+.|+.+.|.+.+++
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 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAE--GTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCST--THHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCc--CcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            455555554433 3344444455566666666666666666655544211  3455555566666666666666666666


Q ss_pred             HHHCCCCC-----CHHHHHHHHHH--HHh--CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009143          287 MFQKNIQT-----DIVAYNVLING--FCL--NGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVL  357 (542)
Q Consensus       287 ~~~~~~~~-----~~~~~~~li~~--~~~--~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  357 (542)
                      |.+.  .|     +..+...|+.+  ...  .+++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+
T Consensus       162 ~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          162 YTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6544  23     23333344433  221  22566666666665443  333222233333555566666666665544


Q ss_pred             HHCC---------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 009143          358 SKTG---------VAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKS  396 (542)
Q Consensus       358 ~~~~---------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  396 (542)
                      .+.-         -+.++.+...+|......|+  +|.+++.++.+..
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            3320         02234444333333333444  5555555555543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.19  E-value=2.1e-09  Score=99.60  Aligned_cols=128  Identities=16%  Similarity=0.022  Sum_probs=56.0

Q ss_pred             HHHHcCChhhHHHHHHHHHHC----CCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--CCCcHHHHHHHHH
Q 009143          197 GYCRVNELDKALHLFSTMANN----GIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK--ATSDVITSTILMD  269 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~l~~  269 (542)
                      .|...|++++|.+.|++....    |-+++ ..+|..+..+|.+.|++++|+..+++.+...+..  ......+++.+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344556666666665555332    11111 2445555555555566666655555554422100  0001234444444


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          270 SYFKN-GDKFQALALWNDMFQKNIQ-TD----IVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       270 ~~~~~-g~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      .|... |++++|+..|++..+.... .+    ..++..+...+.+.|++++|+..|++..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  186 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            55543 5555555555444432100 00    22344444444444444444444444444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.18  E-value=2.3e-09  Score=99.35  Aligned_cols=239  Identities=12%  Similarity=0.010  Sum_probs=158.2

Q ss_pred             hHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHc--C-ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHH
Q 009143          170 EKADHVIREMSEMRPSPNCATYNAFITGYCRV--N-ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFL  246 (542)
Q Consensus       170 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g-~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~  246 (542)
                      .+|.+++.+..+.-. +....| .    +.+.  + ++++|...|++.               ...|...|++++|.+.+
T Consensus         2 ~~a~~~~~~a~k~~~-~~~~~~-~----~~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~   60 (292)
T 1qqe_A            2 SDPVELLKRAEKKGV-PSSGFM-K----LFSGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSF   60 (292)
T ss_dssp             CCHHHHHHHHHHHSS-CCCTHH-H----HHSCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHH
T ss_pred             CcHHHHHHHHHHHhC-cCCCcc-h----hcCCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHH
Confidence            356666666655432 221222 2    2232  2 488888888776               34577899999999999


Q ss_pred             HHHHhCCCC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHHhC-CCHHHHHHH
Q 009143          247 GEVLADDDG--KATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI---QT--DIVAYNVLINGFCLN-GDISSAFAY  318 (542)
Q Consensus       247 ~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~--~~~~~~~li~~~~~~-~~~~~A~~~  318 (542)
                      .+.+.....  .......+|+.+...|.+.|++++|+..+++..+...   .+  -..+++.+...|... |++++|+..
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            988764210  1002256899999999999999999999988875310   11  145788888888886 999999999


Q ss_pred             HHHHHHcCCCC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh------hHHHHHHHHHhcCCHHHHHH
Q 009143          319 FCQMLKRGFLP-D----VITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQI------SYKTIIQGLCIHGDIVKARE  387 (542)
Q Consensus       319 ~~~~~~~~~~p-~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~li~~~~~~g~~~~A~~  387 (542)
                      |++..+..... +    ..++..+...+.+.|++++|...|++..+........      .+..+..++...|++++|..
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            98887642100 1    3467788888889999999999998888754322221      45666777888889999998


Q ss_pred             HHHHHHhCCCCC-C---HHHHHHHHHHHH--hcCChHHHHHHHHHHHh
Q 009143          388 FLLSMLEKSVVP-E---PHIWNVIIDGYG--RCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       388 ~~~~~~~~~~~~-~---~~~~~~li~~~~--~~g~~~~A~~~~~~m~~  429 (542)
                      .+++.++..+.. +   ...+..++.++.  ..+++++|+..|+.+..
T Consensus       221 ~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          221 TLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            888887653321 1   113444555554  45667777777766554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.17  E-value=1.6e-08  Score=92.03  Aligned_cols=183  Identities=15%  Similarity=0.109  Sum_probs=129.6

Q ss_pred             HHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 009143          242 AVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI-QTDIVAYNVLINGFCLNGDISSAFAYFC  320 (542)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~  320 (542)
                      |+..+++.+..+.    ++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.++
T Consensus        85 a~~~l~~l~~~~~----~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~  160 (310)
T 3mv2_B           85 NIEELENLLKDKQ----NSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFD  160 (310)
T ss_dssp             CCHHHHHTTTTSC----CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC----CCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            6677777776553    4455566888889999999999999998876652 2467778888889999999999999999


Q ss_pred             HHHHcCCCC-----CHHHHHHHHHHHH--hcC--CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          321 QMLKRGFLP-----DVITYNTLLNCLC--KQG--KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLS  391 (542)
Q Consensus       321 ~~~~~~~~p-----~~~~~~~li~~~~--~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  391 (542)
                      +|.+.  .|     +..+...++.++.  ..|  +..+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.
T Consensus       161 ~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~  236 (310)
T 3mv2_B          161 NYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVEL  236 (310)
T ss_dssp             HHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHH
Confidence            98876  55     3566666666633  234  889999999998664  34433344455578888999999999887


Q ss_pred             HHhCC---------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 009143          392 MLEKS---------VVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNV  436 (542)
Q Consensus       392 ~~~~~---------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  436 (542)
                      +.+..         -+-++.++-.+|......|+  +|.++++++.+.  .|+.
T Consensus       237 l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          237 LLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             HHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             HHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence            66531         02366677555555555666  778888888874  4554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.14  E-value=7.3e-08  Score=95.71  Aligned_cols=366  Identities=9%  Similarity=-0.064  Sum_probs=195.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCC-hhHHHHHHHHHhhC-CCC-CCHHhHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGD-LEKADHVIREMSEM-RPS-PNCATYNAFIT  196 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~-~~~-~~~~~~~~li~  196 (542)
                      .|...+..+-. |+++.+..+|++.+..  .|++..|...+....+.+. .+....+|+..... |.. .+...|...+.
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~   93 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIE   93 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence            44444444443 5666666666666653  3566666665555555442 24445555554432 221 24455555555


Q ss_pred             HHH----HcCChhhHHHHHHHHHHCCCCCC-h-HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHH
Q 009143          197 GYC----RVNELDKALHLFSTMANNGIRPN-R-VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDS  270 (542)
Q Consensus       197 ~~~----~~g~~~~A~~~~~~m~~~g~~p~-~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~  270 (542)
                      .+.    ..++.+.+..+|++....  ++. . ..|..... +.+......+.+++.+.                     
T Consensus        94 f~~~~~~~~~~~~~vR~iy~rAL~~--P~~~~~~lw~~Y~~-fE~~~~~~~~~~~~~~~---------------------  149 (493)
T 2uy1_A           94 EEGKIEDEQTRIEKIRNGYMRALQT--PMGSLSELWKDFEN-FELELNKITGKKIVGDT---------------------  149 (493)
T ss_dssp             HTSSCSSHHHHHHHHHHHHHHHHTS--CCTTHHHHHHHHHH-HHHHHCHHHHHHHHHHH---------------------
T ss_pred             HHHhchhhhHHHHHHHHHHHHHHhC--hhhhHHHHHHHHHH-HHHHhccccHHHHHHHH---------------------
Confidence            432    224455566666666542  111 1 11111111 11111111122221111                     


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC--C-----HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009143          271 YFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG--D-----ISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK  343 (542)
Q Consensus       271 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~-----~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  343 (542)
                         .+.+..|..+++.+...-...+...|...+..-...+  -     .+.+..+|+++.... +.+...|...+.-+.+
T Consensus       150 ---~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~  225 (493)
T 2uy1_A          150 ---LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIG  225 (493)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHH
T ss_pred             ---hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence               1122333333433332100113345555444432211  1     345667888877753 4456777777777788


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC------------CCCCHHHHHHHHHHH
Q 009143          344 QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKS------------VVPEPHIWNVIIDGY  411 (542)
Q Consensus       344 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------------~~~~~~~~~~li~~~  411 (542)
                      .|+.+.|..++++....  +.+...+.    .|....+.++.   ++.+.+.-            .......|...+...
T Consensus       226 ~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~  296 (493)
T 2uy1_A          226 IGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYV  296 (493)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHH
Confidence            88888888888888876  22322222    22221111111   22221110            001124566667777


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHH--HHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009143          412 GRCGDLSNAFSIRDLMLSFGVSSNVFTFN--ALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCAR  489 (542)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  489 (542)
                      .+.++.+.|..+|+++ +.. ..+...|.  +.+.      +...++.+.|..+|+...+.. +-++..+...++.....
T Consensus       297 ~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE------~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~  367 (493)
T 2uy1_A          297 LKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIE------YYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRI  367 (493)
T ss_dssp             HHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHH------HHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHH------HHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHc
Confidence            7788899999999998 321 12333333  2232      222347999999999988742 22345566677877889


Q ss_pred             CCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          490 GNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       490 g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      |+.+.|..+|+++.     .....|...+.--...|+.+.+.++++++++
T Consensus       368 ~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          368 GDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             TCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999872     2567888888877888999999999988864

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.12  E-value=2.8e-09  Score=96.98  Aligned_cols=101  Identities=12%  Similarity=0.120  Sum_probs=78.2

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC-CC-HHh
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPD---VLTHNYLVNELCKIGDLEKADHVIREMSEMRPS-PN-CAT  190 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~-~~~  190 (542)
                      .++..+..+...+.+.|++++|+..|+++++... .+   ...+..+..+|.+.|++++|...|+++.+..|. |. ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3556777788888889999999999999887632 13   567788888889999999999999998886552 22 456


Q ss_pred             HHHHHHHHHH--------cCChhhHHHHHHHHHHC
Q 009143          191 YNAFITGYCR--------VNELDKALHLFSTMANN  217 (542)
Q Consensus       191 ~~~li~~~~~--------~g~~~~A~~~~~~m~~~  217 (542)
                      +..+..++..        .|++++|+..|+++.+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            6677777887        88888888888888775

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.12  E-value=2.3e-09  Score=97.62  Aligned_cols=104  Identities=9%  Similarity=-0.008  Sum_probs=81.0

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC--HHhHHHHHHHHHHcCChhhHHHHHHHHHHCCC-CCC-hHHH
Q 009143          151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN--CATYNAFITGYCRVNELDKALHLFSTMANNGI-RPN-RVTH  226 (542)
Q Consensus       151 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~  226 (542)
                      .+...+..+...+.+.|++++|.+.|+++.+..|...  ...+..+..++.+.|++++|+..|++..+... .|. ...+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            3566777788888899999999999999988665321  56778888889999999999999999887521 112 4566


Q ss_pred             HHHHHHHHh--------cCChhHHHHHHHHHHhCCC
Q 009143          227 NILVHALCK--------KGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       227 ~~l~~~~~~--------~g~~~~a~~~~~~~~~~~~  254 (542)
                      ..+..++..        .|++++|...|+++++..+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p  128 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP  128 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCc
Confidence            777788888        8899999999999888766

>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=99.09  E-value=8.6e-09  Score=82.57  Aligned_cols=58  Identities=16%  Similarity=0.260  Sum_probs=22.2

Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 009143          193 AFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLA  251 (542)
Q Consensus       193 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  251 (542)
                      .+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|.+.++++..
T Consensus         6 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~   63 (136)
T 2fo7_A            6 NLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE   63 (136)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            33334444444444444444443321 11233333333333334444444444443333

>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=99.08  E-value=7.6e-09  Score=82.89  Aligned_cols=128  Identities=19%  Similarity=0.281  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK  235 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  235 (542)
                      +..+...+...|++++|.++++++.+..+ .+...+..+...+...|++++|...++++...+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            44455555555555555555555554433 244455555555555555555555555554432 2234444455555555


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      .|++++|.+.++++....+    .+..++..++..+.+.|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDP----RSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            5555555555555554433    3344444445555555555555555544443

>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=99.08  E-value=1.9e-09  Score=112.14  Aligned_cols=170  Identities=13%  Similarity=0.004  Sum_probs=90.4

Q ss_pred             HHcCChhHHHHHHHHHh--------hCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 009143          164 CKIGDLEKADHVIREMS--------EMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK  235 (542)
Q Consensus       164 ~~~g~~~~A~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  235 (542)
                      ...|++++|++.+++..        +..+ .+...+..+...+.+.|++++|++.|++..+.. +.+...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFS-ESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccc-cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            44555555555555555        3322 234455555555555566666666555555432 2234555555555555


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHH
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSA  315 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  315 (542)
                      .|++++|.+.|+++++..+    .+...+..+...+.+.|++++ .+.|++..+.+ +.+...|..+..++.+.|++++|
T Consensus       480 ~g~~~~A~~~~~~al~l~P----~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A  553 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFP----GELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGA  553 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHST----TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHH
Confidence            5666666666666555554    445555555556666666655 55555555543 34455555556666666666666


Q ss_pred             HHHHHHHHHcCCCCC-HHHHHHHHHHHHh
Q 009143          316 FAYFCQMLKRGFLPD-VITYNTLLNCLCK  343 (542)
Q Consensus       316 ~~~~~~~~~~~~~p~-~~~~~~li~~~~~  343 (542)
                      ++.|+++.+.  .|+ ...+..+..++..
T Consensus       554 ~~~~~~al~l--~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          554 VRTLDEVPPT--SRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHTSCTT--STTHHHHHHHHHHHTC-
T ss_pred             HHHHHhhccc--CcccHHHHHHHHHHHHc
Confidence            6666555543  232 3344444444444

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.08  E-value=5.1e-09  Score=91.55  Aligned_cols=76  Identities=14%  Similarity=0.244  Sum_probs=37.6

Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh
Q 009143          194 FITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK  273 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  273 (542)
                      +..+|.+.|++++|+..|++..+.. +-+...+..+...+...|++++|...++++++..+    .+..++..+...|..
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P----~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA----DNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHH
Confidence            4445555555555555555554432 12344455555555555555555555555555444    444455555554443


Q ss_pred             c
Q 009143          274 N  274 (542)
Q Consensus       274 ~  274 (542)
                      .
T Consensus       135 ~  135 (208)
T 3urz_A          135 T  135 (208)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.06  E-value=1.1e-08  Score=89.44  Aligned_cols=75  Identities=16%  Similarity=0.171  Sum_probs=38.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009143          267 LMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCK  343 (542)
Q Consensus       267 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  343 (542)
                      +...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|+..|++..+.. +.+..++..+...|..
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            5555555555555555555555443 3345555555555555555555555555555542 2234444444444433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.03  E-value=3.9e-08  Score=87.08  Aligned_cols=204  Identities=10%  Similarity=-0.001  Sum_probs=119.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-C-ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH--HhHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTV-P-DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNC--ATYN  192 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~  192 (542)
                      ++..+..+...+.+.|++++|+..|+++++.... | ....+..+..+|.+.|++++|+..|+++.+..|....  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            3445666777788888888888888888875321 1 1346777888888888888888888888876654221  2344


Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHH
Q 009143          193 AFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYF  272 (542)
Q Consensus       193 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  272 (542)
                      .+..++...+..     .+            ..|..+...+...|+.++|...|+++++..+    .+..++..+.... 
T Consensus        83 ~~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P----~~~~a~~a~~~l~-  140 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGYP----NSQYTTDATKRLV-  140 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTTCT----TCTTHHHHHHHHH-
T ss_pred             HHHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHHCc----CChhHHHHHHHHH-
Confidence            444444433211     11            1122233344456788888888888888776    2322222111100 


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHH
Q 009143          273 KNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD----VITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       273 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~  348 (542)
                               .+...+.        .....+...+.+.|++++|+..|+++.+.  .|+    ...+..+..++.+.|+.+
T Consensus       141 ---------~~~~~~~--------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~  201 (225)
T 2yhc_A          141 ---------FLKDRLA--------KYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNA  201 (225)
T ss_dssp             ---------HHHHHHH--------HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ---------HHHHHHH--------HHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcH
Confidence                     0000000        11234556677778888888888887776  233    245667777888888888


Q ss_pred             HHHHHHHHHHHCC
Q 009143          349 EASHFYGVLSKTG  361 (542)
Q Consensus       349 ~A~~~~~~~~~~~  361 (542)
                      +|.+.++.+...+
T Consensus       202 ~A~~~~~~l~~~~  214 (225)
T 2yhc_A          202 QAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhhC
Confidence            8888887777654

>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=99.02  E-value=3.6e-08  Score=86.37  Aligned_cols=177  Identities=15%  Similarity=0.132  Sum_probs=121.8

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC----ChhhHHHHH
Q 009143          136 TALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN----ELDKALHLF  211 (542)
Q Consensus       136 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~A~~~~  211 (542)
                      +|++.|++..+.|   ++.++..+...|...+++++|.+.|++..+.+   +...+..|...|.. +    ++++|.+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4667777777654   66777777777777888888888888877654   45666667776666 5    778888888


Q ss_pred             HHHHHCCCCCChHHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh----cCCHHHHHHH
Q 009143          212 STMANNGIRPNRVTHNILVHALCK----KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK----NGDKFQALAL  283 (542)
Q Consensus       212 ~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~  283 (542)
                      ++..+.|   +...+..|...|..    .+++++|.+++++..+.++..  ....++..|...|..    .++.++|...
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~--~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  151 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESD--AAVDAQMLLGLIYASGVHGPEDDVKASEY  151 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSH--HHHHHHHHHHHHHHHTSSSSCCHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCc--chHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            8876654   55666677777766    677788888888777655300  126677777777777    6677777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhC-C-----CHHHHHHHHHHHHHcC
Q 009143          284 WNDMFQKNIQTDIVAYNVLINGFCLN-G-----DISSAFAYFCQMLKRG  326 (542)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~li~~~~~~-~-----~~~~A~~~~~~~~~~~  326 (542)
                      |++..+.  +.+...+..|...|... |     +.++|...|++..+.|
T Consensus       152 ~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          152 FKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            7777765  23444566666666543 2     6777777777777665

>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=99.02  E-value=2e-09  Score=88.53  Aligned_cols=144  Identities=8%  Similarity=0.008  Sum_probs=90.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChh
Q 009143          126 RDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELD  205 (542)
Q Consensus       126 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  205 (542)
                      ..+...|++++|+..++...... +.+...+..+...|.+.|++++|++.|++..+..| .+..+|..+..+|.+.|+++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchH
Confidence            34455567777777777665531 12344556677777777777777777777776655 35667777777777777777


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHH-HHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKF-LGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      +|+..|++..+.. +-+..++..+...+.+.|+.++|.+. ++++++..|    .+..+|......+...|+
T Consensus        83 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P----~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP----GSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST----TCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc----CCHHHHHHHHHHHHHhCc
Confidence            7777777776642 22456666677777777776655443 466666655    555666666555555553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.02  E-value=2.3e-08  Score=88.63  Aligned_cols=202  Identities=11%  Similarity=0.053  Sum_probs=98.6

Q ss_pred             chhHHH-HHHHHHHhhHHHHHHHHhhCCCCCCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCh-hhHHH
Q 009143           83 PQAVFN-ALDLILKENLDRLKTMRDTGPVRCTLET-DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTV-PDV-LTHNY  158 (542)
Q Consensus        83 ~~~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~-~~~~~  158 (542)
                      +...++ +...+-.+.++.+...++.+.....-.+ ....+..+..++.+.|++++|+..|+++++.... +.. .++..
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            344444 3444445666666666655431111111 2357888899999999999999999999986322 111 24555


Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcC
Q 009143          159 LVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR-VTHNILVHALCKKG  237 (542)
Q Consensus       159 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g  237 (542)
                      +..++...|..     .+            ..|..+...+...|++++|...|+++.+.  .|+. .+......      
T Consensus        84 ~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~------  138 (225)
T 2yhc_A           84 RGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR------  138 (225)
T ss_dssp             HHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH------
T ss_pred             HHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH------
Confidence            56666553311     00            01112223333455666666666666553  2222 12111100      


Q ss_pred             ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhCCCHHH
Q 009143          238 LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD---IVAYNVLINGFCLNGDISS  314 (542)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~  314 (542)
                              +..+..       ........+...|.+.|++++|...|+++.+.. +.+   ...+..+..++.+.|++++
T Consensus       139 --------l~~~~~-------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~  202 (225)
T 2yhc_A          139 --------LVFLKD-------RLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDY-PDTQATRDALPLMENAYRQMQMNAQ  202 (225)
T ss_dssp             --------HHHHHH-------HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTSHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             --------HHHHHH-------HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC-cCCCccHHHHHHHHHHHHHcCCcHH
Confidence                    000000       001112234555566666666666666665542 111   1345556666666666666


Q ss_pred             HHHHHHHHHHc
Q 009143          315 AFAYFCQMLKR  325 (542)
Q Consensus       315 A~~~~~~~~~~  325 (542)
                      |.+.++.+...
T Consensus       203 A~~~~~~l~~~  213 (225)
T 2yhc_A          203 AEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhh
Confidence            66666665554

>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=99.01  E-value=4.7e-09  Score=109.21  Aligned_cols=174  Identities=16%  Similarity=0.002  Sum_probs=142.2

Q ss_pred             HhcCChhHHHHHHHHHH--------hCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 009143          234 CKKGLLGDAVKFLGEVL--------ADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLING  305 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  305 (542)
                      ...|++++|++.+++++        +..+    .+...+..+...+...|++++|.+.|++..+.+ +.+...|..+..+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p----~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~  476 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFS----ESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVA  476 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCT----TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccc----cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHH
Confidence            67899999999999998        5554    677888999999999999999999999998775 5678889999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 009143          306 FCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKA  385 (542)
Q Consensus       306 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  385 (542)
                      +...|++++|++.|+++.+.. +.+...+..+..++.+.|++++ ...|++..+.+ +.+...+..+..++.+.|++++|
T Consensus       477 ~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A  553 (681)
T 2pzi_A          477 ELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGA  553 (681)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999998874 3356778888899999999999 99999988864 33567888888999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 009143          386 REFLLSMLEKSVVPEPHIWNVIIDGYGRCGD  416 (542)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  416 (542)
                      .+.++++++.++. +...+..+..++...++
T Consensus       554 ~~~~~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          554 VRTLDEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HHHHHhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            9999998876543 56677778887766554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.01  E-value=7.3e-09  Score=95.56  Aligned_cols=166  Identities=11%  Similarity=0.073  Sum_probs=110.1

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHH-HH
Q 009143          151 PDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHN-IL  229 (542)
Q Consensus       151 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~l  229 (542)
                      .+...+..+...+.+.|++++|.+.|++..+..|. +...+..+...+.+.|++++|...++++...  .|+..... ..
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            34455666777777778888888887777776653 5667777777777778888888777776554  34433222 22


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQ-TDIVAYNVLINGFCL  308 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~  308 (542)
                      ...+...++.++|.+.+++.+...+    .+...+..+...+...|++++|...|+++.+.... .+...+..++..+..
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P----~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~  267 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENP----EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAA  267 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCC----ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHH
Confidence            2335566667777777777777665    66777777777777777777777777777765311 115566677777777


Q ss_pred             CCCHHHHHHHHHHHH
Q 009143          309 NGDISSAFAYFCQML  323 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~  323 (542)
                      .|+.++|...|++..
T Consensus       268 ~g~~~~a~~~~r~al  282 (287)
T 3qou_A          268 LGTGDALASXYRRQL  282 (287)
T ss_dssp             HCTTCHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHH
Confidence            777777766666544

>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=99.00  E-value=1.7e-09  Score=89.05  Aligned_cols=144  Identities=12%  Similarity=-0.018  Sum_probs=88.5

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCh
Q 009143          160 VNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLL  239 (542)
Q Consensus       160 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  239 (542)
                      ...+...|++++|++.++......+ .+...+-.+...|.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~p-~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSPR-QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSHH-HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            3444455677777777776654332 134455566677777777777777777776643 22556677777777777777


Q ss_pred             hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHhCC
Q 009143          240 GDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALAL-WNDMFQKNIQTDIVAYNVLINGFCLNG  310 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~~  310 (542)
                      ++|...|+++++..+    .+..++..+...+.+.|+.++|.+. +++..+.. |-++.+|......+...|
T Consensus        82 ~~A~~~~~~al~~~p----~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVELNP----TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            777777777777665    5666677777777777776655443 45555543 445556665555555544

>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=99.00  E-value=5.1e-09  Score=88.86  Aligned_cols=160  Identities=12%  Similarity=0.025  Sum_probs=68.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHH-HH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITG-YC  199 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~  199 (542)
                      +..+...+.+.|++++|+..|++.++.. +.+...+..+...+.+.|++++|...++++.+..|  +...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHH
Confidence            4444455555555555555555554431 12344555555555555555555555555544332  22222211111 11


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQ  279 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  279 (542)
                      ..+...+|+..+++..+.. +.+...+..+...+...|++++|...++++++..+..  .+...+..+...+...|+.++
T Consensus        86 ~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~--~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGA--QDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTT--TTTHHHHHHHHHHHHHCSSCH
T ss_pred             hhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc--ChHHHHHHHHHHHHHhCCCCc
Confidence            1112223344444444321 1123444444444444444444444444444443311  123344444444444444444


Q ss_pred             HHHHHHH
Q 009143          280 ALALWND  286 (542)
Q Consensus       280 a~~~~~~  286 (542)
                      |...|++
T Consensus       163 A~~~y~~  169 (176)
T 2r5s_A          163 IASKYRR  169 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.00  E-value=2.9e-07  Score=84.57  Aligned_cols=222  Identities=14%  Similarity=0.062  Sum_probs=129.0

Q ss_pred             hcCC-hHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcC--ChhHHHHHHHHHhhCCCCCCHHhHHHHHHHH----HHc-
Q 009143          130 LGGK-IGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIG--DLEKADHVIREMSEMRPSPNCATYNAFITGY----CRV-  201 (542)
Q Consensus       130 ~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~----~~~-  201 (542)
                      +.|. .++|+.+++.++... +-+..+|+.-...+...|  +++++++.++.+....|+ +..+|+.-...+    ... 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcc
Confidence            3443 357888888877753 224456777777777777  788888888888776664 555666554444    444 


Q ss_pred             --CChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChh--HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC-
Q 009143          202 --NELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLG--DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD-  276 (542)
Q Consensus       202 --g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-  276 (542)
                        +++++++++++++.+.. +-+..+|..-.-.+.+.|.++  ++++.++++++.++    .+-.+|+.....+...|. 
T Consensus       122 ~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~----~N~sAW~~R~~ll~~l~~~  196 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL----KNNSAWSHRFFLLFSKKHL  196 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHSSGGG
T ss_pred             ccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHhcccc
Confidence              56677777777776653 225566666666666666666  67777777776665    666666666666555554 


Q ss_pred             -----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHH-HHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHH
Q 009143          277 -----KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISS-AFAYFCQMLKRG--FLPDVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       277 -----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~~~~~~--~~p~~~~~~~li~~~~~~g~~~  348 (542)
                           ++++++.++.+.... +-|...|+.+...+.+.|+..+ +.++..++.+.+  -..++..+..+...+.+.|+.+
T Consensus       197 ~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          197 ATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             chhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                 555666665555544 4455555555555555554322 233333333221  1223444555555555555555


Q ss_pred             HHHHHHHHHHH
Q 009143          349 EASHFYGVLSK  359 (542)
Q Consensus       349 ~A~~~~~~~~~  359 (542)
                      +|.++++.+.+
T Consensus       276 ~A~~~~~~l~~  286 (306)
T 3dra_A          276 ESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555555443

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.99  E-value=9.2e-09  Score=87.24  Aligned_cols=164  Identities=16%  Similarity=0.146  Sum_probs=132.2

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHH-
Q 009143          154 LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHA-  232 (542)
Q Consensus       154 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~-  232 (542)
                      ..+..+...+.+.|++++|...|++..+..| .+...+..+...+.+.|++++|+..+++....  .|+...+..+... 
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~   83 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLE   83 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHH
Confidence            3566777889999999999999999887665 37788999999999999999999999998764  3444433332222 


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhCCC
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQT-DIVAYNVLINGFCLNGD  311 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~  311 (542)
                      +...+...+|...+++.++..+    .+...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~P----~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~  159 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAANP----DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQ  159 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCS
T ss_pred             HHhhcccchHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCC
Confidence            2233344568999999999877    788999999999999999999999999999885332 35688999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 009143          312 ISSAFAYFCQMLK  324 (542)
Q Consensus       312 ~~~A~~~~~~~~~  324 (542)
                      .++|...|++...
T Consensus       160 ~~~A~~~y~~al~  172 (176)
T 2r5s_A          160 GNAIASKYRRQLY  172 (176)
T ss_dssp             SCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHH
Confidence            9999999988764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.99  E-value=4.8e-07  Score=83.14  Aligned_cols=219  Identities=11%  Similarity=-0.014  Sum_probs=154.0

Q ss_pred             ChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC--ChhhHHHHHHHHHHCCCCCChHHHHHHHHHH----Hhc---CC
Q 009143          168 DLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN--ELDKALHLFSTMANNGIRPNRVTHNILVHAL----CKK---GL  238 (542)
Q Consensus       168 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~----~~~---g~  238 (542)
                      ..++|+++++.++..+|. +...|+.--.++...|  +++++++.++.+.....+ +..+|+.-...+    ...   ++
T Consensus        48 ~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           48 YSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCC
Confidence            346899999999887764 6778888888888888  899999999998876422 455565544444    444   78


Q ss_pred             hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC-----
Q 009143          239 LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF--QALALWNDMFQKNIQTDIVAYNVLINGFCLNGD-----  311 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-----  311 (542)
                      +++++++++++++.++    .+..+|+...-.+.+.|.++  ++++.++++.+.+ +.|...|+.....+...+.     
T Consensus       126 ~~~EL~~~~~~l~~~p----kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          126 PYREFDILEAMLSSDP----KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             THHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             HHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhh
Confidence            8888999999988777    78888888888888888877  8888888888776 5677778777777766665     


Q ss_pred             -HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCC--CCCChhhHHHHHHHHHhcCCHHHHHH
Q 009143          312 -ISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE-ASHFYGVLSKTG--VAPDQISYKTIIQGLCIHGDIVKARE  387 (542)
Q Consensus       312 -~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~  387 (542)
                       ++++++.+.++.... +-|...|+-+-..+.+.|+... +..+...+...+  -+.+...+..+...|.+.|+.++|.+
T Consensus       201 ~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~  279 (306)
T 3dra_A          201 TIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRT  279 (306)
T ss_dssp             HHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHH
Confidence             777777777777664 3456667666666666665333 344444443321  12344556666666666666666666


Q ss_pred             HHHHHHh
Q 009143          388 FLLSMLE  394 (542)
Q Consensus       388 ~~~~~~~  394 (542)
                      +++.+.+
T Consensus       280 ~~~~l~~  286 (306)
T 3dra_A          280 VYDLLKS  286 (306)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6666654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.97  E-value=2.2e-08  Score=92.39  Aligned_cols=168  Identities=12%  Similarity=0.001  Sum_probs=139.8

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHH-hHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCA-TYNAF  194 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l  194 (542)
                      .+...+..+...+.+.|++++|...|++.++.. +.+...+..+...+.+.|++++|.+.++++....|  +.. .....
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p--~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQ--DTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGC--SHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhc--chHHHHHHH
Confidence            455677888889999999999999999999874 33678899999999999999999999999987654  433 23333


Q ss_pred             HHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          195 ITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       195 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      ...+.+.++.++|...+++..... +.+...+..+...+...|++++|...+.++++..+..  .+...+..++..+...
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~--~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTA--ADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTG--GGGHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccc--ccchHHHHHHHHHHHc
Confidence            344677888999999999988763 4467889999999999999999999999999988722  3488999999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 009143          275 GDKFQALALWNDMFQ  289 (542)
Q Consensus       275 g~~~~a~~~~~~~~~  289 (542)
                      |+.++|...+++...
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            999999999887653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.95  E-value=1.6e-06  Score=86.05  Aligned_cols=369  Identities=10%  Similarity=0.008  Sum_probs=213.8

Q ss_pred             chhHHH-HHHHHHHhhHHHHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCC-hHHHHHHHHHHHhC-CCC-CChhhHHH
Q 009143           83 PQAVFN-ALDLILKENLDRLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGK-IGTALWLRRKMIQK-GTV-PDVLTHNY  158 (542)
Q Consensus        83 ~~~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~-g~~-p~~~~~~~  158 (542)
                      -..++. .+..+..++.++++.+++...   ...|++..|...+....+.+. .+....+|+..+.. |.. ++...|..
T Consensus        14 aR~vyer~l~~~P~~~~e~~~~iferal---~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~   90 (493)
T 2uy1_A           14 PSAIMEHARRLYMSKDYRSLESLFGRCL---KKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKE   90 (493)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHh---ccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHH
Confidence            345555 344444477889999998865   335799999999988887764 46677889988864 533 35677777


Q ss_pred             HHHHHH----HcCChhHHHHHHHHHhhCCCCCCH-HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 009143          159 LVNELC----KIGDLEKADHVIREMSEMRPSPNC-ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHAL  233 (542)
Q Consensus       159 li~~~~----~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  233 (542)
                      .+..+.    ..|+.+.+.++|++.+.. |..+. ..|......- +......+..++.+..                  
T Consensus        91 Yi~f~~~~~~~~~~~~~vR~iy~rAL~~-P~~~~~~lw~~Y~~fE-~~~~~~~~~~~~~~~~------------------  150 (493)
T 2uy1_A           91 YIEEEGKIEDEQTRIEKIRNGYMRALQT-PMGSLSELWKDFENFE-LELNKITGKKIVGDTL------------------  150 (493)
T ss_dssp             HHHHTSSCSSHHHHHHHHHHHHHHHHTS-CCTTHHHHHHHHHHHH-HHHCHHHHHHHHHHHH------------------
T ss_pred             HHHHHHhchhhhHHHHHHHHHHHHHHhC-hhhhHHHHHHHHHHHH-HHhccccHHHHHHHHh------------------
Confidence            776654    346788999999999874 32222 2333322221 1112222333222211                  


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC--C-----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG--D-----KFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~-----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                         +.+..|..+++++...-. .  .+...|...+..-...+  -     .+.+..+|++++... +.+...|...+..+
T Consensus       151 ---~~y~~ar~~y~~~~~~~~-~--~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~  223 (493)
T 2uy1_A          151 ---PIFQSSFQRYQQIQPLIR-G--WSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYL  223 (493)
T ss_dssp             ---HHHHHHHHHHHHHHHHHH-T--CSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHh-h--ccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence               122233333333322111 0  12334444444332211  0     234667777777653 55677787777778


Q ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------C---CCChhhHHHHHH
Q 009143          307 CLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTG---------V---APDQISYKTIIQ  374 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------~---~~~~~~~~~li~  374 (542)
                      .+.|+.+.|..+|++....  +.+...+.    .|....+.++.   ++.+.+.-         .   ......|...+.
T Consensus       224 ~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~  294 (493)
T 2uy1_A          224 IGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLN  294 (493)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHH
Confidence            8888888888888888876  22322222    12222111221   22222110         0   011245666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhccccc
Q 009143          375 GLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR-CGDLSNAFSIRDLMLSFGVSSN-VFTFNALILAETRGASC  452 (542)
Q Consensus       375 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~  452 (542)
                      ...+.++.+.|..+|.++ .. ...+...|...+..-.. .++.+.|..+|+...+..  |+ ...+...+.-     ..
T Consensus       295 ~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~--~~~~~~~~~yid~-----e~  365 (493)
T 2uy1_A          295 YVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH--PDSTLLKEEFFLF-----LL  365 (493)
T ss_dssp             HHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHH-----HH
T ss_pred             HHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--CCCHHHHHHHHHH-----HH
Confidence            666778899999999999 32 22344455433322222 336999999999988742  33 2233333432     45


Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       453 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      +.|+.+.|..+|+++.     .....|...+.--...|+.+.+..+++++.+
T Consensus       366 ~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          366 RIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6699999999999873     2467788888777788999999998888775

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.95  E-value=2.3e-08  Score=102.13  Aligned_cols=164  Identities=11%  Similarity=0.014  Sum_probs=110.3

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHH
Q 009143          131 GGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHL  210 (542)
Q Consensus       131 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  210 (542)
                      .|++++|+..+++..+.. +.+...+..+...|.+.|++++|.+.+++..+..+ .+...+..+...|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            467888888888877653 23567788888888888888888888888887665 3677788888888888888888888


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc---CCHHHHHHHHHHH
Q 009143          211 FSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN---GDKFQALALWNDM  287 (542)
Q Consensus       211 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~  287 (542)
                      +++..+.. +.+...+..+...+.+.|++++|.+.++++++..+    .+...+..+...+...   |+.++|.+.+++.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP----EEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            88887753 33567778888888888888888888888888766    6677788888888888   8888888888888


Q ss_pred             HHCCCCCCHHHHHHH
Q 009143          288 FQKNIQTDIVAYNVL  302 (542)
Q Consensus       288 ~~~~~~~~~~~~~~l  302 (542)
                      .+.+ +.+...|..+
T Consensus       155 l~~~-p~~~~~~~~l  168 (568)
T 2vsy_A          155 VAQG-VGAVEPFAFL  168 (568)
T ss_dssp             HHHT-CCCSCHHHHT
T ss_pred             HhcC-CcccChHHHh
Confidence            7765 3333444433

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.92  E-value=2.2e-07  Score=81.33  Aligned_cols=176  Identities=13%  Similarity=-0.020  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC----CHHHHH
Q 009143          241 DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG----DISSAF  316 (542)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----~~~~A~  316 (542)
                      +|.+.|++..+.      .+..++..+...|...+++++|.+.|++..+.|   ++..+..|...|.. +    ++++|+
T Consensus         4 eA~~~~~~aa~~------g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~   73 (212)
T 3rjv_A            4 EPGSQYQQQAEA------GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQAR   73 (212)
T ss_dssp             CTTHHHHHHHHT------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHH
T ss_pred             hHHHHHHHHHHC------CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHH
Confidence            345555555543      234556666666666666666666666666654   45556666666655 4    666777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHh----cCCHHHHHH
Q 009143          317 AYFCQMLKRGFLPDVITYNTLLNCLCK----QGKLDEASHFYGVLSKTGVA-PDQISYKTIIQGLCI----HGDIVKARE  387 (542)
Q Consensus       317 ~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~  387 (542)
                      +.|++..+.|   +...+..|...|..    .+++++|..+|++..+.|.. .++..+..|...|..    .+++++|..
T Consensus        74 ~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           74 QLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            7777666544   44555556665555    56677777777666665421 014556666666666    566777777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhc-C-----ChHHHHHHHHHHHhCC
Q 009143          388 FLLSMLEKSVVPEPHIWNVIIDGYGRC-G-----DLSNAFSIRDLMLSFG  431 (542)
Q Consensus       388 ~~~~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~~  431 (542)
                      .|++..+.+  .+...+..|...|... |     ++++|...|++..+.|
T Consensus       151 ~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          151 YFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            777776651  2344556666666542 2     6777777777766654

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.92  E-value=3.6e-08  Score=100.69  Aligned_cols=154  Identities=14%  Similarity=-0.017  Sum_probs=97.1

Q ss_pred             cCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHH
Q 009143          201 VNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQA  280 (542)
Q Consensus       201 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  280 (542)
                      .|++++|++.+++..+.. +.+...+..+...+...|++++|.+.+++.++..+    .+..++..+...+...|++++|
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A   76 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP----GHPEAVARLGRVRWTQQRHAEA   76 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST----TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHCCCHHHH
Confidence            366777777777776542 23466777777777777777777777777777665    6677777777777777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHH
Q 009143          281 LALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQ---GKLDEASHFYGVL  357 (542)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~  357 (542)
                      .+.+++..+.. +.+...+..+...+.+.|++++|.+.|++..+.. +.+...+..+...+...   |+.++|.+.+++.
T Consensus        77 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           77 AVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            77777777664 4456677777777777777777777777777653 33456667777777777   7777777777777


Q ss_pred             HHCC
Q 009143          358 SKTG  361 (542)
Q Consensus       358 ~~~~  361 (542)
                      .+.+
T Consensus       155 l~~~  158 (568)
T 2vsy_A          155 VAQG  158 (568)
T ss_dssp             HHHT
T ss_pred             HhcC
Confidence            6654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.90  E-value=1.9e-08  Score=93.81  Aligned_cols=95  Identities=16%  Similarity=-0.034  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCC---CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-hh
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGF---LP--DVITYNTLLNCLCKQGKLDEASHFYGVLSKT----GVAPD-QI  367 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~---~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~-~~  367 (542)
                      ++..+...|.. |++++|+..|++..+...   .+  ...++..+...|.+.|++++|...|++..+.    +..+. ..
T Consensus       118 ~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  196 (307)
T 2ifu_A          118 ALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYK  196 (307)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHH
Confidence            34444555544 555555555555443210   00  1234555666666666666666666655542    11011 12


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          368 SYKTIIQGLCIHGDIVKAREFLLSML  393 (542)
Q Consensus       368 ~~~~li~~~~~~g~~~~A~~~~~~~~  393 (542)
                      .+..+...+...|++++|...+++.+
T Consensus       197 ~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          197 KCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            34444455555677777777777766

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.85  E-value=1.5e-07  Score=87.72  Aligned_cols=161  Identities=9%  Similarity=-0.058  Sum_probs=79.4

Q ss_pred             HHHHcCChhhHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC--CCCCCcHHHHHHHHH
Q 009143          197 GYCRVNELDKALHLFSTMANN----GIRP-NRVTHNILVHALCKKGLLGDAVKFLGEVLADDD--GKATSDVITSTILMD  269 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~~~l~~  269 (542)
                      .|...|++++|...|.+..+.    |-.+ -..+|..+...|.+.|++++|...+++.+....  ........++..+..
T Consensus        45 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  124 (307)
T 2ifu_A           45 AFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGK  124 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455555555555544332    1000 023455555555555555555555555543311  000012345555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHH
Q 009143          270 SYFKNGDKFQALALWNDMFQKNI---QT--DIVAYNVLINGFCLNGDISSAFAYFCQMLKR----GFLPD-VITYNTLLN  339 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~~~~~---~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~p~-~~~~~~li~  339 (542)
                      .|.. |++++|+..|++..+...   .+  ...++..+...+.+.|++++|+..|++..+.    +..+. ...+..+..
T Consensus       125 ~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~  203 (307)
T 2ifu_A          125 LMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVL  203 (307)
T ss_dssp             HHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Confidence            6655 666666666665543210   00  1345566666666666666666666665542    11111 124445555


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 009143          340 CLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       340 ~~~~~g~~~~A~~~~~~~~  358 (542)
                      ++...|++++|...|++..
T Consensus       204 ~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          204 VQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHh
Confidence            5556666666666666665

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.81  E-value=3.1e-07  Score=80.28  Aligned_cols=124  Identities=9%  Similarity=-0.063  Sum_probs=62.9

Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh
Q 009143          194 FITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK  273 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  273 (542)
                      +...+...|++++|+..|++..    .|+...+..+...+...|++++|.+.+++.+...+    .+..++..+...+..
T Consensus        12 ~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~----~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A           12 EGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK----HLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----cchHHHHHHHHHHHH
Confidence            3344444455555555444431    33444455555555555555555555555554443    444455555555555


Q ss_pred             cCCHHHHHHHHHHHHHCCCC---------------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          274 NGDKFQALALWNDMFQKNIQ---------------TDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       274 ~g~~~~a~~~~~~~~~~~~~---------------~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .|++++|...|++..+....               .....+..+..++...|++++|.+.|++..+.
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            55555555555555443200               11245556666666666666666666666554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.79  E-value=3.2e-06  Score=78.47  Aligned_cols=175  Identities=13%  Similarity=0.035  Sum_probs=126.5

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcC-ChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHc-C-Chh
Q 009143          129 CLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIG-DLEKADHVIREMSEMRPSPNCATYNAFITGYCRV-N-ELD  205 (542)
Q Consensus       129 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-~~~  205 (542)
                      ...+..++|+.+++.++... +-+..+|+.-...+...| .++++++.++.++...|+ +..+|+.-...+.+. + +++
T Consensus        65 ~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCH
T ss_pred             HhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChH
Confidence            34455568889999988864 225566787777777778 588999999999888774 778888877777766 6 788


Q ss_pred             hHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChh--------HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC-
Q 009143          206 KALHLFSTMANNGIRPNRVTHNILVHALCKKGLLG--------DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD-  276 (542)
Q Consensus       206 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-  276 (542)
                      +++++++++.+.. +-|..+|+.-.-.+.+.|.++        ++++.++++++.++    .+..+|+.....+.+.+. 
T Consensus       143 ~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp----~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          143 SEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG----RNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             HHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHTTSTTC
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHhcccc
Confidence            8888888888754 236667766555555555555        78888888888776    778888888877777765 


Q ss_pred             ------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC
Q 009143          277 ------KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD  311 (542)
Q Consensus       277 ------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  311 (542)
                            ++++++.++++.... +-|...|+.+-..+.+.|+
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence                  577777777777654 5566677666665555554

>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=98.77  E-value=4.9e-08  Score=89.65  Aligned_cols=194  Identities=10%  Similarity=-0.011  Sum_probs=116.9

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNV  301 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  301 (542)
                      +...+..+...+.+.|++++|...+++++...+    .+...|..+...+.+.|++++|...+++..+.. +.+...+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~   77 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP----LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFF   77 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            445566677777777777777777777777665    567777777777778888888888877777664 456677777


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKRGFLPDV-ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHG  380 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  380 (542)
                      +..++...|++++|...|++..+..  |+. ..+...+....+.   ..+.. +........+.+......+. .+ ..|
T Consensus        78 lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~-~l-~~~  149 (281)
T 2c2l_A           78 LGQCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLT-RL-IAA  149 (281)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHH-HH-HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHH-HH-HHH
Confidence            7778888888888888887776542  211 1111111111111   11111 11222223334444433332 22 257


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHHHh
Q 009143          381 DIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC-GDLSNAFSIRDLMLS  429 (542)
Q Consensus       381 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~  429 (542)
                      +.++|++.+++..+..+. +......+...+.+. +.+++|.++|..+.+
T Consensus       150 ~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          150 ERERELEECQRNHEGHED-DGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHHHTTTSGGGTTTSC-HHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHhhhccccc-hhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            888888888887765432 334444444444444 567888888887765

>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=98.76  E-value=2.9e-07  Score=85.16  Aligned_cols=167  Identities=11%  Similarity=-0.001  Sum_probs=96.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCh----hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC-CC----HHhH
Q 009143          122 VAVIRDLCLGGKIGTALWLRRKMIQKGT-VPDV----LTHNYLVNELCKIGDLEKADHVIREMSEMRPS-PN----CATY  191 (542)
Q Consensus       122 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~  191 (542)
                      ...+..+...|++++|..++++..+... .|+.    ..+..+...+...|++++|.+.+++..+.... ++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3346677788888888888888776421 2221    12234556666667888888888877763322 22    2357


Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHC-----CCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCCCcHHH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANN-----GIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDG--KATSDVIT  263 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~  263 (542)
                      +.+...|...|++++|+..|+++.+.     +..+. ..++..+...|.+.|++++|.+.+++.++....  ....-..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            77777777778888887777776531     11111 235556666666666666666666665542110  00012445


Q ss_pred             HHHHHHHHHhcCC-HHHHHHHHHHHH
Q 009143          264 STILMDSYFKNGD-KFQALALWNDMF  288 (542)
Q Consensus       264 ~~~l~~~~~~~g~-~~~a~~~~~~~~  288 (542)
                      |..+...+.+.|+ +++|.+.+++..
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            5555555555553 355555555543

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.75  E-value=7.6e-06  Score=75.98  Aligned_cols=172  Identities=14%  Similarity=0.095  Sum_probs=134.2

Q ss_pred             CChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC-ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhc-C-ChhHHH
Q 009143          167 GDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN-ELDKALHLFSTMANNGIRPNRVTHNILVHALCKK-G-LLGDAV  243 (542)
Q Consensus       167 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-g-~~~~a~  243 (542)
                      +..++|+++++.++..+|. +..+|+.--..+...| .+++++++++.+..... -+..+|+.-...+.+. + +.++++
T Consensus        68 e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l~~~~~~~EL  145 (349)
T 3q7a_A           68 EKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRISPQDPVSEI  145 (349)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHCCSCCHHHH
T ss_pred             CCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhcCCChHHHH
Confidence            4456899999999998774 7788888888888888 59999999999998643 3667787777777666 6 889999


Q ss_pred             HHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC----
Q 009143          244 KFLGEVLADDDGKATSDVITSTILMDSYFKNGDKF--------QALALWNDMFQKNIQTDIVAYNVLINGFCLNGD----  311 (542)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----  311 (542)
                      ++++++++.++    .+..+|+...-.+.+.|.++        ++++.++++.+.. +.|...|+.....+.+.+.    
T Consensus       146 ~~~~k~L~~dp----kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          146 EYIHGSLLPDP----KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHTSSCT----TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHhCC----CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccc
Confidence            99999999887    78888888777777777666        8888888888876 6688888888887777775    


Q ss_pred             ---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 009143          312 ---ISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGK  346 (542)
Q Consensus       312 ---~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  346 (542)
                         ++++++.+.++.... +-|...|+-+-..+.+.|+
T Consensus       221 ~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence               678888888877763 3456666666655555554

>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=98.74  E-value=2.5e-06  Score=78.80  Aligned_cols=92  Identities=16%  Similarity=0.205  Sum_probs=42.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHH
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDV----ITSTILMDSYFKNGDKFQALALWNDMFQKNIQ-TD----IVAYN  300 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~  300 (542)
                      +..+...|++++|.+++++..+.....  ++.    ..+..+...+...|++++|...+++..+.... ++    ..+++
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYH--PEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCC--HHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCC--hHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            444555556666666555555533211  221    12223444444445555555555555542111 11    12345


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHH
Q 009143          301 VLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       301 ~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      .+...|...|++++|+..|+++.
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al  182 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQIL  182 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555555555555555555544

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.72  E-value=8.4e-07  Score=77.48  Aligned_cols=129  Identities=13%  Similarity=-0.036  Sum_probs=71.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 009143          158 YLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG  237 (542)
Q Consensus       158 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  237 (542)
                      .+...+...|++++|.+.|++..    .|+...|..+...+.+.|++++|+..+++..+.. +.+...+..+..++...|
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcc
Confidence            34444555555555555555442    2344555555555555555555555555554432 223445555555555556


Q ss_pred             ChhHHHHHHHHHHhCCCCC------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          238 LLGDAVKFLGEVLADDDGK------------ATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN  291 (542)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  291 (542)
                      ++++|.+.++++++..+..            .+....++..+...+.+.|++++|...|++..+..
T Consensus        86 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            6666665555555544311            00233667777777777777777777777777653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.72  E-value=4.6e-07  Score=71.66  Aligned_cols=93  Identities=16%  Similarity=0.056  Sum_probs=40.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          227 NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       227 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      ......+.+.|++++|++.|++.++..+    .+..+|..+..++.+.|++++|+..+++.++.+ +.+...|..+..++
T Consensus        17 ~~~G~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           17 KNKGNEYFKKGDYPTAMRHYNEAVKRDP----ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            3334444444444444444444444333    344444444444444444444444444444433 23344444444444


Q ss_pred             HhCCCHHHHHHHHHHHHH
Q 009143          307 CLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~  324 (542)
                      ...|++++|++.|++..+
T Consensus        92 ~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            444444444444444444

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.70  E-value=8e-07  Score=73.95  Aligned_cols=95  Identities=15%  Similarity=0.078  Sum_probs=46.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLING  305 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  305 (542)
                      +..+...+...|++++|...+.+.+...+    .+..++..+...+...|++++|...+++..+.. +.+...+..+...
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELNP----SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            33444444455555555555555544433    344445555555555555555555555544433 3344445555555


Q ss_pred             HHhCCCHHHHHHHHHHHHHc
Q 009143          306 FCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       306 ~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +...|++++|...|+++.+.
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh
Confidence            55555555555555555443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.69  E-value=5.7e-07  Score=71.12  Aligned_cols=95  Identities=11%  Similarity=0.009  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHH
Q 009143          191 YNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDS  270 (542)
Q Consensus       191 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~  270 (542)
                      +......|.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++|++.++++++.++    .+..+|..+..+
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p----~~~~a~~~lg~~   90 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS----KFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh----hhhHHHHHHHHH
Confidence            3344444444444444444444444331 22344444444444445555555555554444443    444445555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 009143          271 YFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       271 ~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +...|++++|.+.|++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            55555555555555554443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.69  E-value=2.2e-07  Score=75.94  Aligned_cols=94  Identities=16%  Similarity=-0.017  Sum_probs=41.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLING  305 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  305 (542)
                      +..+...+.+.|++++|.+.|++++..+|    .+...|..+..++...|++++|+..|++..+.. |.++..|..+..+
T Consensus        39 ~~~lg~~~~~~g~~~eA~~~~~~al~~~P----~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           39 IYSYAYDFYNKGRIEEAEVFFRFLCIYDF----YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            33344444444444444444444444433    344444444444444444444444444444433 2233444444444


Q ss_pred             HHhCCCHHHHHHHHHHHHH
Q 009143          306 FCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       306 ~~~~~~~~~A~~~~~~~~~  324 (542)
                      |...|++++|...|++..+
T Consensus       114 ~~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            4444444444444444444

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.68  E-value=7.3e-07  Score=74.20  Aligned_cols=127  Identities=13%  Similarity=0.032  Sum_probs=67.0

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      .+..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|.+.+++.+...+    .+..++..+..
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~~a~   89 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK----KYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----ccHHHHHHHHH
Confidence            34444555555555555555555554432 22345555555555556666666666665555544    44555566666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhCCCHHHHHHHHHHH
Q 009143          270 SYFKNGDKFQALALWNDMFQKNIQTDIVAYNV--LINGFCLNGDISSAFAYFCQM  322 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~~~~~~~~~A~~~~~~~  322 (542)
                      .+...|++++|...+++..+.. +.+...+..  ++..+...|++++|++.+...
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666666666666655543 223333322  222244556666666655544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.67  E-value=7.5e-07  Score=69.87  Aligned_cols=16  Identities=25%  Similarity=0.333  Sum_probs=5.8

Q ss_pred             HHHcCChhHHHHHHHH
Q 009143          163 LCKIGDLEKADHVIRE  178 (542)
Q Consensus       163 ~~~~g~~~~A~~~~~~  178 (542)
                      +...|++++|.+.+++
T Consensus        19 ~~~~~~~~~A~~~~~~   34 (125)
T 1na0_A           19 YYKQGDYDEAIEYYQK   34 (125)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            3333333333333333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.67  E-value=1.3e-06  Score=80.70  Aligned_cols=163  Identities=9%  Similarity=-0.009  Sum_probs=67.5

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhCCCCCCH-----HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCC---CC--hHHHHH
Q 009143          159 LVNELCKIGDLEKADHVIREMSEMRPSPNC-----ATYNAFITGYCRVNELDKALHLFSTMANNGIR---PN--RVTHNI  228 (542)
Q Consensus       159 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~---p~--~~~~~~  228 (542)
                      .+..+...|++++|.+.+++..+..+....     ..+..+...+...|++++|+..+++..+....   +.  ..+++.
T Consensus        81 ~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 2qfc_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            344445555555555555544443221110     11222333344445555555555554432100   01  224444


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHh---CCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCC-CHHHHH
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLA---DDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN----IQT-DIVAYN  300 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~-~~~~~~  300 (542)
                      +...|...|++++|...++++++   ..+........++..+...|.+.|++++|...+++..+..    ... -..+|.
T Consensus       161 lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~  240 (293)
T 2qfc_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            55555555555555555555441   1110000011344455555555555555555555443221    000 133444


Q ss_pred             HHHHHHHhCCCHHHH-HHHHHH
Q 009143          301 VLINGFCLNGDISSA-FAYFCQ  321 (542)
Q Consensus       301 ~li~~~~~~~~~~~A-~~~~~~  321 (542)
                      .+...|.+.|++++| ...+++
T Consensus       241 ~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          241 QRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCcHHHHHHHHHH
Confidence            455555555555555 444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.66  E-value=1.3e-06  Score=68.47  Aligned_cols=60  Identities=23%  Similarity=0.406  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      ++..+...+.+.|++++|...++++.+.. +.+..++..+...+...|++++|...++++.
T Consensus        45 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  104 (125)
T 1na0_A           45 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL  104 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            33333333333333333333333333322 2233333333333444444444444443333

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.65  E-value=5.2e-07  Score=80.92  Aligned_cols=189  Identities=9%  Similarity=-0.116  Sum_probs=100.7

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHH-------HHHHHHcCChhHHHHHHHHHhhCCCC-----CC----------
Q 009143          130 LGGKIGTALWLRRKMIQKGTVPDVLTHNYL-------VNELCKIGDLEKADHVIREMSEMRPS-----PN----------  187 (542)
Q Consensus       130 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-------i~~~~~~g~~~~A~~~~~~~~~~~~~-----~~----------  187 (542)
                      +.++...|.+.|.++.+.. +-....|..+       ...+.+.++..++...+..-.+..|.     -+          
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            4677777777777777653 2244566655       45555555555555544444431110     00          


Q ss_pred             -----HHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc--
Q 009143          188 -----CATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD--  260 (542)
Q Consensus       188 -----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--  260 (542)
                           ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+.......    +.  
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--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPD----KFLA  170 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSC----HHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCC----cccH
Confidence                 1122334555666666666666666665432  3332444445556666666666666654433211    11  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQKNIQT--DIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      ..++..+..++...|++++|++.|++.......|  ..........++.+.|+.++|...|+++...
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            2355556666666666666666666665332213  2234455555666666666666666666655

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.64  E-value=4.3e-06  Score=77.16  Aligned_cols=169  Identities=10%  Similarity=0.066  Sum_probs=115.5

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCCh------HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc--
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPNR------VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD--  260 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--  260 (542)
                      ..+...+..+...|++++|.+.+++..+.... ..      ..+..+...+...|++++|...+.+.+........+.  
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            44555677788999999999999888765322 21      2234455666778899999999988886543111122  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---CC-CCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC----CCC-
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQ---KN-IQT--DIVAYNVLINGFCLNGDISSAFAYFCQMLKRG----FLP-  329 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~-~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~----~~p-  329 (542)
                      ..+++.+...|...|++++|...+++..+   .. ..+  ...++..+...|...|++++|+..+++..+..    ... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            45788888888888888888888888762   21 111  12577788888888888888888888776431    111 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 009143          330 DVITYNTLLNCLCKQGKLDEA-SHFYGVLS  358 (542)
Q Consensus       330 ~~~~~~~li~~~~~~g~~~~A-~~~~~~~~  358 (542)
                      -..+|..+...|.+.|++++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            145677777788888888888 66566544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.64  E-value=9.7e-07  Score=70.24  Aligned_cols=95  Identities=18%  Similarity=0.078  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      .+..+...+...|++++|.+.+++++...+    .+..++..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRNP----KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTCT----TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            334444444444444444444444444333    334444444444444444444444444444332 223344444444


Q ss_pred             HHHhCCCHHHHHHHHHHHHH
Q 009143          305 GFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~  324 (542)
                      .+...|++++|.+.|++..+
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            44444444444444444443

>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=98.63  E-value=4.2e-07  Score=76.84  Aligned_cols=118  Identities=14%  Similarity=0.215  Sum_probs=46.7

Q ss_pred             cCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHH-HHhcCCh--hHH
Q 009143          166 IGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHA-LCKKGLL--GDA  242 (542)
Q Consensus       166 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~-~~~~g~~--~~a  242 (542)
                      .|++++|.+.+++..+..+ .+...|..+...|...|++++|...|++..+.. +.+...+..+... +...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            3444444444444444332 233444444444444444444444444443321 1123333333333 3344443  444


Q ss_pred             HHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          243 VKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      ...+++++...+    .+...+..+...+...|++++|...|+++.+
T Consensus       101 ~~~~~~al~~~p----~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          101 RAMIDKALALDS----NEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC----CcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            444444444333    3333344444444444444444444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.63  E-value=1.3e-06  Score=78.41  Aligned_cols=187  Identities=10%  Similarity=-0.078  Sum_probs=122.5

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHhHHHH-------HHHHHHcCChhhHHHHHHHHHHCCCCCC---------------
Q 009143          165 KIGDLEKADHVIREMSEMRPSPNCATYNAF-------ITGYCRVNELDKALHLFSTMANNGIRPN---------------  222 (542)
Q Consensus       165 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~---------------  222 (542)
                      ..++.+.|.+.|.++.+..|. ....|..+       ...+.+.++..+++..+.+-..  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            578999999999999987764 67788877       4666666666666666665443  2222               


Q ss_pred             -------hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 009143          223 -------RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD  295 (542)
Q Consensus       223 -------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  295 (542)
                             ......+...+...|++++|.++|..+...++    .+. ....+...+.+.+++++|+..|+...... .|.
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p----~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~  168 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGS----EHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKF  168 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTC----HHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC----chH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-Ccc
Confidence                   12233455667778888888888877766554    344 66666667777788888887777554321 111


Q ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          296 --IVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD--VITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       296 --~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                        ...+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...
T Consensus       169 ~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          169 LAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence              23566677777777777777777777764322143  234555566667777777777777777764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.63  E-value=7.8e-07  Score=70.44  Aligned_cols=93  Identities=16%  Similarity=0.110  Sum_probs=38.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          227 NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       227 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      ..+...+...|++++|.+.+++++...+    .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        16 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           16 KTEGNEQMKVENFEAAVHFYGKAIELNP----ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            3333444444444444444444443332    333344444444444444444444444444332 22333444444444


Q ss_pred             HhCCCHHHHHHHHHHHHH
Q 009143          307 CLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~  324 (542)
                      ...|++++|...|++..+
T Consensus        91 ~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            444444444444444443

>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=98.63  E-value=5.9e-07  Score=75.92  Aligned_cols=118  Identities=11%  Similarity=0.103  Sum_probs=52.0

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhCCCH--
Q 009143          236 KGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLING-FCLNGDI--  312 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~--  312 (542)
                      .|++++|...+++.+...+    .+...+..+...+...|++++|...|++..+.. +.+...+..+... +...|++  
T Consensus        23 ~~~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANP----QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             ----CCCCHHHHHHHHHCC----SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             ccCHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            3444444444444444333    344444444444444444444444444444432 2234444444444 4444444  


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          313 SSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       313 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      ++|...++++.+.. +.+...+..+...+...|++++|...++...+
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            55555555444432 12234444444445555555555555554444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.63  E-value=7.9e-07  Score=70.78  Aligned_cols=96  Identities=11%  Similarity=0.063  Sum_probs=44.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHH
Q 009143          119 RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGY  198 (542)
Q Consensus       119 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  198 (542)
                      ..|..+...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|.+.+++..+..+ .+...+..+..++
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHHHH
Confidence            344445555555555555555555544432 12334444444444444555555555444444332 1334444444444


Q ss_pred             HHcCChhhHHHHHHHHHH
Q 009143          199 CRVNELDKALHLFSTMAN  216 (542)
Q Consensus       199 ~~~g~~~~A~~~~~~m~~  216 (542)
                      .+.|++++|.+.|++..+
T Consensus        95 ~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            444444444444444433

>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=98.63  E-value=1.1e-07  Score=87.20  Aligned_cols=14  Identities=0%  Similarity=-0.133  Sum_probs=6.4

Q ss_pred             CCHHHHHHHHHHHH
Q 009143          310 GDISSAFAYFCQML  323 (542)
Q Consensus       310 ~~~~~A~~~~~~~~  323 (542)
                      |++++|++.+++..
T Consensus       149 ~~~~~A~~~~~~al  162 (281)
T 2c2l_A          149 AERERELEECQRNH  162 (281)
T ss_dssp             HHHHHHHTTTSGGG
T ss_pred             HHHHHHHHHHHhhh
Confidence            44444444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.62  E-value=6e-07  Score=77.65  Aligned_cols=64  Identities=14%  Similarity=-0.050  Sum_probs=28.9

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          260 DVITSTILMDSYFKNGDKFQALALWNDMFQK----NI-QTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       260 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      ...++..+...+...|++++|...+++..+.    +. +....++..+...+...|++++|.+.+++..
T Consensus        25 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   93 (203)
T 3gw4_A           25 ASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEER   93 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444555555555555555555444431    00 1122334444445555555555555554443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.62  E-value=1.1e-07  Score=77.72  Aligned_cols=101  Identities=8%  Similarity=0.036  Sum_probs=80.8

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .+...+..+...+.+.|++++|...|++..... |.+...|..+..++...|++++|+..|++..+.. +.++..|..+.
T Consensus        34 ~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg  111 (151)
T 3gyz_A           34 DMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHH
Confidence            566678888888888888888888888888775 5677888888888888888888888888888764 33567777888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCC
Q 009143          339 NCLCKQGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       339 ~~~~~~g~~~~A~~~~~~~~~~~  361 (542)
                      .+|...|++++|...|+...+..
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC
Confidence            88888888888888888887753

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.61  E-value=4.8e-07  Score=78.29  Aligned_cols=97  Identities=10%  Similarity=-0.110  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC---CCCC--
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQK----NIQ--TDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG---FLPD--  330 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~---~~p~--  330 (542)
                      .++..+...+...|++++|.+.+++..+.    +-.  .....+..+...+...|++++|...+++..+..   -.+.  
T Consensus        67 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  146 (203)
T 3gw4_A           67 RALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAI  146 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHH
Confidence            34455555555555555555555544332    100  112334555555555666666666655544320   0111  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          331 VITYNTLLNCLCKQGKLDEASHFYGVLS  358 (542)
Q Consensus       331 ~~~~~~li~~~~~~g~~~~A~~~~~~~~  358 (542)
                      ..++..+...+...|++++|...+++..
T Consensus       147 ~~~~~~la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          147 ACAFRGLGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            1224455555666666666666555443

>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=98.61  E-value=3.9e-05  Score=70.89  Aligned_cols=166  Identities=8%  Similarity=-0.014  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCC
Q 009143          241 DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD----------KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNG  310 (542)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  310 (542)
                      +|+++...++..+|    .+..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-...+...+
T Consensus        48 eaL~~t~~~L~~nP----~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~  122 (331)
T 3dss_A           48 SVLELTSQILGANP----DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  122 (331)
T ss_dssp             HHHHHHHHHHTTCT----TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHCc----hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccC
Confidence            44555555555444    444444444333333222          345555555555443 344555555444444444


Q ss_pred             --CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc--------
Q 009143          311 --DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGK-LDEASHFYGVLSKTGVAPDQISYKTIIQGLCIH--------  379 (542)
Q Consensus       311 --~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------  379 (542)
                        .++++++++.++.+.. +-+...|+.-.-.+...|. ++++++.++.+.+..+ -|...|+.....+.+.        
T Consensus       123 ~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~  200 (331)
T 3dss_A          123 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGP  200 (331)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC----
T ss_pred             cccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhcccccc
Confidence              2555555555555543 2244444444444444454 3555555555555432 2344444443333332        


Q ss_pred             ------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009143          380 ------GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC  414 (542)
Q Consensus       380 ------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  414 (542)
                            +.++++++.+.+.+...+. |...|+-+-..+.+.
T Consensus       201 ~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          201 QGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAG  240 (331)
T ss_dssp             --CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSS
T ss_pred             ccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence                  3466777777777776655 667776554444443

>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=98.58  E-value=4.6e-07  Score=74.03  Aligned_cols=99  Identities=13%  Similarity=0.038  Sum_probs=53.5

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .+...+..+...+...|++++|...|++..... +.+...|..+..++...|++++|+..|++..+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg   96 (148)
T 2vgx_A           19 DTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHH
Confidence            344455555555555555555555555555443 3455555555555555555555555555555542 22344555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 009143          339 NCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       339 ~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      .++...|++++|...|+...+
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.58  E-value=1.2e-06  Score=69.30  Aligned_cols=117  Identities=16%  Similarity=0.097  Sum_probs=56.6

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHH
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHA  232 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  232 (542)
                      ...+..+...+...|++++|.+.+++..+..+ .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            33444455555555555555555555544333 234445555555555555555555555554431 2234444444555


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      +...|++++|.+.++++++..+    .+...+..+...+.+.|
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p----~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDP----DNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHhcCc----cchHHHHHHHHHHHHHh
Confidence            5555555555555555544443    33444444444444443

>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=98.56  E-value=3.4e-05  Score=71.27  Aligned_cols=174  Identities=11%  Similarity=0.055  Sum_probs=117.6

Q ss_pred             HHhcCChH-HHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCC----------hhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          128 LCLGGKIG-TALWLRRKMIQKGTVPDVLTHNYLVNELCKIGD----------LEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       128 ~~~~g~~~-~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      ..+.|.++ +|+.+++.++.... -+..+|+.--..+...|.          ++++..+++.+....|+ +..+|+.-..
T Consensus        39 ~~~~~e~s~eaL~~t~~~L~~nP-~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~w  116 (331)
T 3dss_A           39 KRQAGELDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCW  116 (331)
T ss_dssp             HHHTTCCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34556655 78888888887632 244556654444443333          57788888888887764 7778887777


Q ss_pred             HHHHcCC--hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC-hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh
Q 009143          197 GYCRVNE--LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGL-LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK  273 (542)
Q Consensus       197 ~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  273 (542)
                      .+.+.++  +++++++++++.+... -|..+|+.-.-.+...|. ++++++.+.++++.++    .+..+|+.....+.+
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p----~N~SAW~~R~~ll~~  191 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF----SNYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS----CCHHHHHHHHHHHHH
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHH
Confidence            7777774  7888888888887643 367777777777777777 4788888888888777    778888777777666


Q ss_pred             c--------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          274 N--------------GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       274 ~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                      .              +.++++++.++...... |-|...|+-+-..+.+.
T Consensus       192 l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          192 LHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAG  240 (331)
T ss_dssp             HSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSS
T ss_pred             hhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            5              33566666666666554 45556665444444433

>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=98.56  E-value=1.2e-06  Score=82.51  Aligned_cols=123  Identities=10%  Similarity=-0.083  Sum_probs=61.5

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC--------------HHhHHHHHHHHHHcCChhhHHHHHHHHHHCC
Q 009143          153 VLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN--------------CATYNAFITGYCRVNELDKALHLFSTMANNG  218 (542)
Q Consensus       153 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  218 (542)
                      ...+..+...|.+.|++++|...|++..+..+...              ...|..+..+|.+.|++++|+..+++..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            44556666666666667777666666666444321              2444444444445555555555554444432


Q ss_pred             CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHH
Q 009143          219 IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQA  280 (542)
Q Consensus       219 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  280 (542)
                       +.+...+..+..++...|++++|...|+++++..+    .+..++..+..++.+.|+.++|
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P----~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP----NNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----SCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHHHHHHHH
Confidence             12344444444444444444444444444444443    3444444444444444444444

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.54  E-value=1.6e-06  Score=81.80  Aligned_cols=151  Identities=15%  Similarity=0.018  Sum_probs=92.9

Q ss_pred             CChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC--------------hHHHHHHHHH
Q 009143          167 GDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPN--------------RVTHNILVHA  232 (542)
Q Consensus       167 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--------------~~~~~~l~~~  232 (542)
                      +++++|.+.++...+..+ .+...+..+...+.+.|++++|+..|++..+......              ...|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~p-~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEKL-EQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHHH-HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHHH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            455566555544333222 2456778888888889999999999988877532111              3556666666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDI  312 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  312 (542)
                      +.+.|++++|+..++++++..+    .+..++..+..+|...|++++|...|++..+.. +.+...+..+...+...|+.
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~p----~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~  280 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELDS----NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQ  280 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666554    556666666666666666666666666666553 34455566666666666666


Q ss_pred             HHH-HHHHHHHH
Q 009143          313 SSA-FAYFCQML  323 (542)
Q Consensus       313 ~~A-~~~~~~~~  323 (542)
                      ++| ...|+.|.
T Consensus       281 ~~a~~~~~~~~~  292 (336)
T 1p5q_A          281 LAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555 33444443

>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=98.53  E-value=5.2e-07  Score=73.73  Aligned_cols=97  Identities=11%  Similarity=-0.098  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..+..+...+.+.|++++|...|++++...+    .+...|..+..++...|++++|...|++..... +.++..+..+.
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg   96 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLDH----YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCc----ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHH
Confidence            3444555556666666666666666665554    555566666666666666666666666665553 34455566666


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHc
Q 009143          304 NGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .++...|++++|...|++..+.
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666666554

>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=98.51  E-value=3e-06  Score=66.84  Aligned_cols=95  Identities=16%  Similarity=0.014  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      .+..+...+.+.|++++|...+++.++..+    .+...|..+..++.+.|++++|+..+++..+.. +.+...|..+..
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAP----EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            344444445555555555555555555443    444555555555555555555555555555443 334445555555


Q ss_pred             HHHhCCCHHHHHHHHHHHHH
Q 009143          305 GFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~  324 (542)
                      ++...|++++|...|++..+
T Consensus        81 ~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           81 AQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHH
Confidence            55555555555555555444

>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=98.50  E-value=2e-07  Score=80.59  Aligned_cols=82  Identities=15%  Similarity=-0.060  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLIN  304 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  304 (542)
                      .+..+..++.+.|++++|...+++++...+    .+..++..+..++...|++++|.+.|++..+.. +.+...+..+..
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  164 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKIDK----NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYEL  164 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCc----ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHH
Confidence            344444444444555555555544444433    344444444444444455555544444444432 223334444444


Q ss_pred             HHHhCCC
Q 009143          305 GFCLNGD  311 (542)
Q Consensus       305 ~~~~~~~  311 (542)
                      ++...++
T Consensus       165 ~~~~~~~  171 (198)
T 2fbn_A          165 CVNKLKE  171 (198)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4333333

>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=98.49  E-value=2.2e-07  Score=80.33  Aligned_cols=131  Identities=15%  Similarity=0.045  Sum_probs=83.3

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC---------------HHhHHHHHHHHHHcCChhhHHHHHHHHHHCC
Q 009143          154 LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN---------------CATYNAFITGYCRVNELDKALHLFSTMANNG  218 (542)
Q Consensus       154 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  218 (542)
                      ..+..+...+.+.|++++|.+.|++..+..+...               ...|..+..+|.+.|++++|+..+++..+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3445555556666666666666666655433211               2567777777888888888888888877652


Q ss_pred             CCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHH-HHHHHHHH
Q 009143          219 IRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQAL-ALWNDMFQ  289 (542)
Q Consensus       219 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~  289 (542)
                       +.+...+..+..++...|++++|.+.++++++..+    .+..++..+..++...++.+++. ..+..+..
T Consensus       119 -p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          119 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP----NNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             -cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             33567777788888888888888888888887765    66777777777777766666555 44444443

>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=98.47  E-value=3.3e-06  Score=66.76  Aligned_cols=95  Identities=18%  Similarity=0.164  Sum_probs=45.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----HHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI--QTD----IVAY  299 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~  299 (542)
                      +..+...+.+.|++++|++.|+++++..+    .+..+|..+..+|.+.|++++|++.+++.++...  .++    ..+|
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p----~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDP----SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            34444555555555555555555555444    4445555555555555555555555555443210  001    1234


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      ..+..++...|++++|++.|++..+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4444455555555555555555444

>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=98.46  E-value=7.2e-06  Score=63.34  Aligned_cols=93  Identities=15%  Similarity=0.052  Sum_probs=39.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          227 NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       227 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      ..+...+...|++++|.+.+++.+...+    .+...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus         8 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            8 KEKGNKALSVGNIDDALQCYSEAIKLDP----HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHCC----CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            3333444444444444444444444332    333444444444444444444444444444332 22333444444444


Q ss_pred             HhCCCHHHHHHHHHHHHH
Q 009143          307 CLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~  324 (542)
                      ...|++++|.+.+++..+
T Consensus        83 ~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            444444444444444433

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.45  E-value=7.9e-06  Score=63.11  Aligned_cols=99  Identities=15%  Similarity=0.081  Sum_probs=50.8

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 009143          154 LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHAL  233 (542)
Q Consensus       154 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  233 (542)
                      ..+..+...+...|++++|.+.+++.....+ .+...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            3445555555555555555555555554433 244455555555555555555555555554432 12344445555555


Q ss_pred             HhcCChhHHHHHHHHHHhCCC
Q 009143          234 CKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~  254 (542)
                      ...|++++|.+.+++..+..+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHhhHHHHHHHHHHHHHcCC
Confidence            555555555555555554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.42  E-value=3.3e-06  Score=68.35  Aligned_cols=92  Identities=17%  Similarity=-0.045  Sum_probs=42.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 009143          228 ILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFC  307 (542)
Q Consensus       228 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  307 (542)
                      .+...+.+.|++++|...|++++..++    .+...|..+..++...|++++|...|++....+ +.++..+..+..++.
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDH----YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            334444444444444444444444443    344444444444444444444444444444433 233344444444444


Q ss_pred             hCCCHHHHHHHHHHHHH
Q 009143          308 LNGDISSAFAYFCQMLK  324 (542)
Q Consensus       308 ~~~~~~~A~~~~~~~~~  324 (542)
                      ..|++++|...|++..+
T Consensus        98 ~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            45555555554444443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.42  E-value=2.4e-06  Score=69.15  Aligned_cols=100  Identities=12%  Similarity=-0.011  Sum_probs=73.1

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .+...+..+...+.+.|++++|...|++....+ +.+...|..+..++...|++++|+..|++..+.. +.+...+..+.
T Consensus        16 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   93 (142)
T 2xcb_A           16 DTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHH
Confidence            455666677777778888888888888777665 5567777777777788888888888888777763 33556667777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 009143          339 NCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       339 ~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      .++...|++++|...|+...+.
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            7777778888887777777654

>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=98.41  E-value=6e-06  Score=65.10  Aligned_cols=93  Identities=16%  Similarity=0.076  Sum_probs=39.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHH
Q 009143          121 HVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCR  200 (542)
Q Consensus       121 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  200 (542)
                      |..+...+.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|.+.+++..+..|. +...|..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHH
Confidence            3444444444444444444444444432 113334444444444444444444444444443321 33344444444444


Q ss_pred             cCChhhHHHHHHHHH
Q 009143          201 VNELDKALHLFSTMA  215 (542)
Q Consensus       201 ~g~~~~A~~~~~~m~  215 (542)
                      .|++++|...|++..
T Consensus        85 ~~~~~~A~~~~~~al   99 (126)
T 3upv_A           85 VKEYASALETLDAAR   99 (126)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHH
Confidence            444444444444443

>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=98.39  E-value=3.9e-06  Score=66.34  Aligned_cols=96  Identities=19%  Similarity=0.220  Sum_probs=45.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----HHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI--QTD----IVAY  299 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~  299 (542)
                      +..+...+...|++++|...+++++...+    .+...+..+...+...|++++|...+++......  .++    ..++
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELDP----TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCC----ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            34444444455555555555555544433    3444455555555555555555555555443320  011    3444


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          300 NVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       300 ~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      ..+...+...|++++|.+.|+++.+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            45555555555555555555555543

>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=98.38  E-value=6.2e-06  Score=65.20  Aligned_cols=98  Identities=15%  Similarity=0.168  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC--CCC----HHHH
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF--LPD----VITY  334 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~--~p~----~~~~  334 (542)
                      ..++..++..+.+.|++++|+..|++.++.. |.+...|..+..+|.+.|++++|++.+++..+...  .++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4566777888888888888888888877765 55677777888888888888888888877765421  111    1245


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          335 NTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       335 ~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      ..+..++...|++++|.+.|++...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5566666667777777777766655

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.38  E-value=3.7e-06  Score=64.33  Aligned_cols=25  Identities=8%  Similarity=0.022  Sum_probs=9.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          264 STILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       264 ~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      +..+...+...|++++|...+++..
T Consensus        43 ~~~~a~~~~~~~~~~~A~~~~~~a~   67 (112)
T 2kck_A           43 WLMKGKALYNLERYEEAVDCYNYVI   67 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3333333333333333333333333

>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=98.37  E-value=9.3e-06  Score=64.94  Aligned_cols=95  Identities=15%  Similarity=-0.010  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..+..+...+...|++++|...+.+.+...+    .+...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus        10 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B           10 QELKEQGNRLFVGRKYPEAAACYGRAITRNP----LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc----CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            3344444444444444444444444444333    334444444444444444444444444444432 22344444444


Q ss_pred             HHHHhCCCHHHHHHHHHHHH
Q 009143          304 NGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~  323 (542)
                      .++...|++++|...|++..
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHH
Confidence            44444444444444444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.36  E-value=8.4e-06  Score=67.74  Aligned_cols=97  Identities=11%  Similarity=-0.048  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..+..+...+.+.|++++|++.|++.++..+    .+...|..+..+|.+.|++++|+..|++..+.. +.+...|..+.
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIAP----ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3444445555555555555555555555444    445555555555555555555555555555443 33455555555


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHc
Q 009143          304 NGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .++...|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            5555555555555555555543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.35  E-value=7.1e-06  Score=68.20  Aligned_cols=98  Identities=8%  Similarity=0.022  Sum_probs=56.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFIT  196 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  196 (542)
                      +...|..+...+.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|++.|++..+..+. +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34455556666666666666666666665542 224555555666666666666666666666554432 4555555555


Q ss_pred             HHHHcCChhhHHHHHHHHHH
Q 009143          197 GYCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~  216 (542)
                      +|...|++++|...|++..+
T Consensus        88 ~~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH
Confidence            56666666666666655554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.33  E-value=7e-06  Score=62.76  Aligned_cols=100  Identities=11%  Similarity=-0.095  Sum_probs=61.8

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC-CCHHhHHHHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPS-PNCATYNAFI  195 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li  195 (542)
                      +...|..+...+.+.|++++|+..+++..+.. +.+...+..+...+...|++++|.+.+++..+..+. .+...+..+.
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            34456666666667777777777777766653 224555666666666666666666666666665431 0355566666


Q ss_pred             HHHHHc-CChhhHHHHHHHHHHC
Q 009143          196 TGYCRV-NELDKALHLFSTMANN  217 (542)
Q Consensus       196 ~~~~~~-g~~~~A~~~~~~m~~~  217 (542)
                      .++.+. |++++|.+.+++....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhc
Confidence            666666 6666666666666554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.32  E-value=2e-05  Score=63.78  Aligned_cols=96  Identities=14%  Similarity=-0.007  Sum_probs=43.5

Q ss_pred             HhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCC----hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHH
Q 009143          189 ATYNAFITGYCRVNELDKALHLFSTMANNGIRPN----RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITS  264 (542)
Q Consensus       189 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  264 (542)
                      ..+..+...+...|++++|...|++..+.  .|+    ...+..+...+...|++++|.+.+++.+...+    .+...+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~  102 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG----GDVKAL  102 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS----CCHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc----cCHHHH
Confidence            34444444444444444444444444432  222    33344444444444444444444444444333    334444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          265 TILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       265 ~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      ..+..++...|++++|...|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            44444444455555555554444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.31  E-value=2.6e-05  Score=76.25  Aligned_cols=201  Identities=13%  Similarity=0.039  Sum_probs=135.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCC----------------hhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC-C
Q 009143          124 VIRDLCLGGKIGTALWLRRKMIQKGTVPD----------------VLTHNYLVNELCKIGDLEKADHVIREMSEMRPS-P  186 (542)
Q Consensus       124 li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~  186 (542)
                      -...+.+.|++++|++.|..+++......                ..++..++..|.+.|++++|.+.+..+...... +
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            34567888999999999999987532211                123677888999999999999988887653221 1


Q ss_pred             CH----HhHHHHHHHHHHcCChhhHHHHHHHHHHC----CCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC--C
Q 009143          187 NC----ATYNAFITGYCRVNELDKALHLFSTMANN----GIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDD--G  255 (542)
Q Consensus       187 ~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~  255 (542)
                      +.    .+.+.+...+...|++++|..+++.....    +..+. ..++..+...+...|++++|..++.++...-.  .
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    12333334444568888898888876542    22222 45677888888899999999988887765311  0


Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          256 KATSDVITSTILMDSYFKNGDKFQALALWNDMFQK----NIQTD--IVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       256 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      ..+....++..++..|...|++++|...+++....    +.++.  ...+..+...+...+++++|...|.+..+
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            11134567888888888888888888888876542    11111  24456666677777888888887777654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.30  E-value=5.5e-06  Score=64.83  Aligned_cols=88  Identities=16%  Similarity=0.084  Sum_probs=34.3

Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|+..++++++..+    .+..++..+...+...|
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P----~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP----KDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcC
Confidence            33334444444444444443321 11333333344444444444444444444444333    33333334444444444


Q ss_pred             CHHHHHHHHHHHH
Q 009143          276 DKFQALALWNDMF  288 (542)
Q Consensus       276 ~~~~a~~~~~~~~  288 (542)
                      ++++|...+++..
T Consensus       100 ~~~~A~~~~~~al  112 (121)
T 1hxi_A          100 NANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            4444444444333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.29  E-value=2.6e-05  Score=63.08  Aligned_cols=99  Identities=15%  Similarity=0.031  Sum_probs=56.8

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD---VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVA  298 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  298 (542)
                      +...+..+...+...|++++|.+.+++.++..+    .+   ...+..+...+...|++++|...+++..+.. +.+...
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  101 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDA----TPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKA  101 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCC----CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcc----cchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHH
Confidence            344555556666666666666666666665443    22   4555556666666666666666666555543 334555


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          299 YNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       299 ~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +..+..++...|++++|...|++..+.
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            555555566666666666666655554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.28  E-value=8e-05  Score=72.80  Aligned_cols=88  Identities=11%  Similarity=0.005  Sum_probs=42.2

Q ss_pred             ccccCChHHHHHHHHHHHh--CCC--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHc--CCCCC----hhHHHHHHH
Q 009143          451 SCNLGHIHLALQLYDEMLR--RGI--TPD-IITYTELIKGHCARGNMKEAEEVFAKIQTL--GLAID----HIPFRILKK  519 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~--~g~--~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~~~----~~~~~~l~~  519 (542)
                      +...|++++|..+++++..  .+.  .|. ..+|..++..|...|++++|..++++....  ....+    ...+..++.
T Consensus       145 ~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~  224 (434)
T 4b4t_Q          145 HYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGI  224 (434)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHH
Confidence            3344555555555554443  111  111 234555566666666666666666555431  11111    123444445


Q ss_pred             HHHhcCChhHHHHHHHHHh
Q 009143          520 RYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       520 ~~~~~g~~~~A~~~~~~~l  538 (542)
                      .+...|++++|...|.+++
T Consensus       225 ~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          225 LHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHH
Confidence            5555666666666665554

>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=98.28  E-value=1.1e-05  Score=64.58  Aligned_cols=98  Identities=10%  Similarity=-0.049  Sum_probs=50.6

Q ss_pred             CHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHH
Q 009143          187 NCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTI  266 (542)
Q Consensus       187 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  266 (542)
                      +...|..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++++...+    .+..++..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~   82 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG----QSVKAHFF   82 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc----hhHHHHHH
Confidence            34444455555555555555555555544432 22344455555555555555555555555555444    44555555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 009143          267 LMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       267 l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      +..++...|++++|...|++..+
T Consensus        83 l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           83 LGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555555555543

>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=98.26  E-value=8e-06  Score=64.46  Aligned_cols=109  Identities=12%  Similarity=0.127  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCc----HHHHH
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSD----VITST  265 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~~  265 (542)
                      .+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++++...+ ...++    ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGR-ENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH-HSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcc-ccchhHHHHHHHHH
Confidence            34444444455555555555555544432 22344444555555555555555555555544332 00011    45566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVL  302 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  302 (542)
                      .+...+...|++++|.+.|++..+..  |+......+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l  118 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHH
Confidence            66666666666666666666666542  344444333

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.19  E-value=5.5e-05  Score=59.57  Aligned_cols=94  Identities=17%  Similarity=0.064  Sum_probs=42.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHH
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD---IVAYNVLINGF  306 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~  306 (542)
                      ...+...|++++|.+.++++++..+ ..+....++..+..++.+.|++++|...|++..+.. +.+   ...+..+..++
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHH
Confidence            3344444555555555555444333 100111344444455555555555555555544432 112   33444444555


Q ss_pred             HhCCCHHHHHHHHHHHHHc
Q 009143          307 CLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       307 ~~~~~~~~A~~~~~~~~~~  325 (542)
                      ...|++++|...|+++.+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            5555555555555555443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.16  E-value=1.8e-05  Score=61.90  Aligned_cols=96  Identities=10%  Similarity=0.028  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCK  235 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  235 (542)
                      +..+...+.+.|++++|...|++..+..| .+...|..+..++...|++++|+..|++..+.. +.+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            34445555555666666666665555443 245555555555556666666666665555532 1234455555555555


Q ss_pred             cCChhHHHHHHHHHHhCC
Q 009143          236 KGLLGDAVKFLGEVLADD  253 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~~  253 (542)
                      .|++++|...++++++..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            666666666665555543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=6.3e-05  Score=59.19  Aligned_cols=93  Identities=14%  Similarity=0.089  Sum_probs=43.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCh---hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC--HHhHHHHHHH
Q 009143          123 AVIRDLCLGGKIGTALWLRRKMIQKGTVPDV---LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPN--CATYNAFITG  197 (542)
Q Consensus       123 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~  197 (542)
                      .+...+.+.|++++|+..|+...+... .+.   ..+..+...+.+.|++++|...|+++.+..|...  ...+..+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            344444555555555555555554321 111   2444445555555555555555555544333210  3334444444


Q ss_pred             HHHcCChhhHHHHHHHHHH
Q 009143          198 YCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~  216 (542)
                      +...|++++|...|+++.+
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555444

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.16  E-value=3.5e-05  Score=63.74  Aligned_cols=66  Identities=12%  Similarity=0.106  Sum_probs=47.0

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .+..+|..+..+|.+.|++++|+..+++.++.+ +.+...|..+..++...|++++|...|++..+.
T Consensus        61 ~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           61 KNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            344567777777777777777777777777664 456667777777777777777777777777665

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.13  E-value=1.5e-05  Score=65.53  Aligned_cols=99  Identities=11%  Similarity=0.032  Sum_probs=43.8

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHCCCC-CC----hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--CCCcHH
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANNGIR-PN----RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGK--ATSDVI  262 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~  262 (542)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++.+......  ......
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444445555555555555555544332100 01    1234445555555555555555555544321100  001123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      ++..+...+...|++++|.+.+++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~  116 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHL  116 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            44445555555555555555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.12  E-value=6.7e-06  Score=63.88  Aligned_cols=60  Identities=12%  Similarity=-0.010  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      .+..+...+...|++++|.+.++++++..+    .+..++..+..++...|++++|...+++..
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   88 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFP----NHQALRVFYAMVLYNLGRYEQGVELLLKII   88 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            333444444444444444444444444333    333444444444444444444444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.11  E-value=1.6e-05  Score=65.38  Aligned_cols=100  Identities=14%  Similarity=0.092  Sum_probs=56.6

Q ss_pred             hHHHHHHHHHHcCChhhHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCCCcHH
Q 009143          190 TYNAFITGYCRVNELDKALHLFSTMANN----GIRP-NRVTHNILVHALCKKGLLGDAVKFLGEVLADDDG--KATSDVI  262 (542)
Q Consensus       190 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~  262 (542)
                      ++..+...+...|++++|.+.+++..+.    +-.+ ....+..+...+...|++++|.+.+++.+.....  .......
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            4555555566666666666666554432    1000 1345566667777777777777777766543110  0002234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      ++..+...+...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            566666777777777777777766553

>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=98.10  E-value=4e-05  Score=73.04  Aligned_cols=90  Identities=12%  Similarity=-0.004  Sum_probs=52.3

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .+..+|..+..+|.+.|++++|++.+++.++.. +.+...|..+..+|...|++++|++.|+++.+.. +.+...+..+.
T Consensus       271 ~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~  348 (370)
T 1ihg_A          271 VALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELL  348 (370)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            344566666666666666666666666666554 3455666666666666666666666666666552 22344444445


Q ss_pred             HHHHhcCCHHHH
Q 009143          339 NCLCKQGKLDEA  350 (542)
Q Consensus       339 ~~~~~~g~~~~A  350 (542)
                      ..+...++.+++
T Consensus       349 ~~~~~~~~~~~a  360 (370)
T 1ihg_A          349 KVKQKIKAQKDK  360 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555444444444

>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=98.10  E-value=3.2e-05  Score=76.20  Aligned_cols=88  Identities=10%  Similarity=-0.085  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..|..+..++.+.|++++|+..++++++..+    .+..+|..+..+|...|++++|...|++..+.. +.+...+..+.
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p----~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~  392 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLDS----ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIS  392 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC----ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4455555555555555555555555555544    455555555555555555555555555555543 33445555555


Q ss_pred             HHHHhCCCHHHHH
Q 009143          304 NGFCLNGDISSAF  316 (542)
Q Consensus       304 ~~~~~~~~~~~A~  316 (542)
                      .++.+.++.+++.
T Consensus       393 ~~~~~~~~~~~a~  405 (457)
T 1kt0_A          393 MCQKKAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>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=98.09  E-value=4.2e-05  Score=75.30  Aligned_cols=96  Identities=14%  Similarity=0.086  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNC  340 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~  340 (542)
                      ..+|..+..+|.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|+..|+++.+.. +.+...+..+..+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~  394 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMC  394 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            5677888888888888888888888888765 5567788888888888888888888888887763 2345667777777


Q ss_pred             HHhcCCHHHHHH-HHHHHH
Q 009143          341 LCKQGKLDEASH-FYGVLS  358 (542)
Q Consensus       341 ~~~~g~~~~A~~-~~~~~~  358 (542)
                      +.+.++.+++.+ ++..|.
T Consensus       395 ~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          395 QKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            777777776653 444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.07  E-value=1.2e-05  Score=62.42  Aligned_cols=89  Identities=11%  Similarity=0.044  Sum_probs=66.9

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHH
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISS  314 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  314 (542)
                      ..|++++|+..++++++.+. ..+.+..++..+...+...|++++|...|++..+.. +.+...+..+..++...|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~-~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGL-QGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCC-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCC-CCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHH
Confidence            35778888888888887641 111567788888888888899999999888888775 5567788888888888888888


Q ss_pred             HHHHHHHHHHc
Q 009143          315 AFAYFCQMLKR  325 (542)
Q Consensus       315 A~~~~~~~~~~  325 (542)
                      |+..|++..+.
T Consensus        80 A~~~~~~al~~   90 (117)
T 3k9i_A           80 GVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888888765

>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=98.06  E-value=1.2e-05  Score=79.69  Aligned_cols=118  Identities=16%  Similarity=0.084  Sum_probs=70.6

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD  311 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  311 (542)
                      .+.+.|++++|.+.++++++..+    .+..++..+..++.+.|++++|.+.+++..+.. +.+..+|..+..+|...|+
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNP----SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            34456666666666666666554    556666666777777777777777777666654 4456666666777777777


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHH
Q 009143          312 ISSAFAYFCQMLKRGFLPDVITYNTLLNC--LCKQGKLDEASHFYG  355 (542)
Q Consensus       312 ~~~A~~~~~~~~~~~~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  355 (542)
                      +++|++.|++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        90 ~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            777777777766652 1123334444444  566677777777666

>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=98.04  E-value=5e-05  Score=72.37  Aligned_cols=121  Identities=12%  Similarity=-0.088  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHHC---------------CCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 009143          191 YNAFITGYCRVNELDKALHLFSTMANN---------------GIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDG  255 (542)
Q Consensus       191 ~~~li~~~~~~g~~~~A~~~~~~m~~~---------------g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  255 (542)
                      +..+...+.+.|++++|++.|++..+.               --+.+..+|..+..++.+.|++++|++.++++++..+ 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-
Confidence            444445555555555555555554430               0112346677788888888888888888888888766 


Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 009143          256 KATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       256 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  316 (542)
                         .+..++..+..+|...|++++|.+.|++..+.. +.+...+..+...+...++.+++.
T Consensus       305 ---~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          305 ---SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             ---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence               677888888888888888888888888887764 446666777776666666665554

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.03  E-value=0.00026  Score=71.41  Aligned_cols=171  Identities=11%  Similarity=0.026  Sum_probs=128.9

Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCC----------hhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC
Q 009143          133 KIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGD----------LEKADHVIREMSEMRPSPNCATYNAFITGYCRVN  202 (542)
Q Consensus       133 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  202 (542)
                      ..++|++.++.++.... -+..+|+.-...+.+.|+          ++++.+.++.+.+..|+ +..+|+.-...+.+.+
T Consensus        44 ~~eeal~~~~~~l~~nP-~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            34677899999888642 255677777777777776          88999999999888774 7888888888888888


Q ss_pred             --ChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc-----
Q 009143          203 --ELDKALHLFSTMANNGIRPNRVTHNILVHALCKKG-LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN-----  274 (542)
Q Consensus       203 --~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  274 (542)
                        +++++++.++++.+.... +..+|+....++.+.| .++++.+.+.++++.++    .+..+|+.....+.+.     
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p----~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF----SNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC----CCHHHHHHHHHHHHHHSCCCC
T ss_pred             cccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC----CCccHHHHHHHHHHhhccccc
Confidence              669999999999886533 7778888777778888 78888899888888777    7888888888777764     


Q ss_pred             ---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC
Q 009143          275 ---------GDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD  311 (542)
Q Consensus       275 ---------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  311 (542)
                               +.++++++.+++..... +-|...|..+-..+.+.++
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                     44577777777776654 4566666666666655555

>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=98.03  E-value=1.2e-05  Score=79.68  Aligned_cols=118  Identities=14%  Similarity=0.035  Sum_probs=67.1

Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      .+.+.|++++|++.|++..+.. +.+..++..+..++.+.|++++|.+.++++++..+    .+..++..+..+|...|+
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p----~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK----KYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT----TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCC
Confidence            3445566666666666665542 22355566666666666666666666666666554    556666666666666666


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHhCCCHHHHHHHHH
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLING--FCLNGDISSAFAYFC  320 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~A~~~~~  320 (542)
                      +++|.+.|++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            666666666666543 2233444444444  566667777777666

>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=98.00  E-value=0.00035  Score=70.41  Aligned_cols=172  Identities=8%  Similarity=-0.012  Sum_probs=111.4

Q ss_pred             hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          240 GDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD----------KFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                      ++|.+.+++++...+    .+..+|+.-...+...|+          ++++++.++.+.+.. +-+..+|+.-...+.+.
T Consensus        46 eeal~~~~~~l~~nP----~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           46 ESVLELTSQILGANP----DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             HHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHCc----hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            355666666666555    555666666665555555          666666666666654 45666666666666666


Q ss_pred             C--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc-------
Q 009143          310 G--DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG-KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIH-------  379 (542)
Q Consensus       310 ~--~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-------  379 (542)
                      +  +++++++.++++.+.. +-+...|+.-..++.+.| .++++.+.++.+.+.. +-+...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence            6  5567777777766654 235555665555566666 6666666666666653 22455555555554442       


Q ss_pred             -------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 009143          380 -------GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSN  419 (542)
Q Consensus       380 -------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  419 (542)
                             +.++++++.+.+++...+. |...|+.+...+.+.++.++
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                   4578999999999987765 88899988888888777544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.96  E-value=0.0001  Score=60.85  Aligned_cols=65  Identities=11%  Similarity=-0.030  Sum_probs=48.0

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN  291 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  291 (542)
                      ...|..+..++.+.|++++|+..+++++..++    .+..+|..+..++...|++++|...|++.....
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p----~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREE----TNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCC----cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            35666677777777777777777777777665    667777777777777777777777777777653

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.96  E-value=0.00011  Score=59.35  Aligned_cols=98  Identities=11%  Similarity=-0.039  Sum_probs=52.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---CCc-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKA---TSD-----VITSTILMDSYFKNGDKFQALALWNDMFQK-------  290 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------  290 (542)
                      +......+.+.|++++|...|++.++..+...   ..+     ...|+.+..++.+.|++++|+..+++.++.       
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            34444555556666666666666665544100   001     226666666666666666666666666554       


Q ss_pred             CCCCCHHHH----HHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          291 NIQTDIVAY----NVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       291 ~~~~~~~~~----~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      + +-+...|    .....++...|++++|+..|++..+
T Consensus        94 ~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 N-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             T-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3 2334445    5555555566666666666655543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.94  E-value=2.1e-05  Score=74.02  Aligned_cols=62  Identities=13%  Similarity=0.016  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .|..+..++.+.|++++|+..+++++...+    .+..+|..+..+|...|++++|...|++..+.
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p----~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEEE----KNPKALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555555555555555555444    44555555555555555555555555555443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.90  E-value=0.00016  Score=58.42  Aligned_cols=62  Identities=13%  Similarity=0.033  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhC-------CCCCCCCcHHHH----HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLAD-------DDGKATSDVITS----TILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .|..+..++.+.|++++|+..+++.++.       ++    .+...|    .....++...|++++|+..|++..+.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~p----d~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ----DEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTS----THHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCC----chHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            6666677777777777777777777765       65    677777    88888888888888888888888753

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.84  E-value=3.8e-05  Score=72.32  Aligned_cols=128  Identities=12%  Similarity=0.004  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH------------------HhHHHHHHHHHHcCChhhHHHHHHHHHHC
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMRPSPNC------------------ATYNAFITGYCRVNELDKALHLFSTMANN  217 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~------------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~  217 (542)
                      +..+...+.+.|++++|...|++..+..+  +.                  ..|..+..+|.+.|++++|+..+++..+.
T Consensus       182 ~~~~g~~~~~~g~~~~A~~~y~~Al~~~p--~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  259 (338)
T 2if4_A          182 RKMDGNSLFKEEKLEEAMQQYEMAIAYMG--DDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTE  259 (338)
T ss_dssp             HHHHHHHTCSSSCCHHHHHHHHHHHHHSC--HHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhc--cchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44455555556666666666666554332  21                  37888888999999999999999998875


Q ss_pred             CCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHC
Q 009143          218 GIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDS-YFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       218 g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~  290 (542)
                      . +.+...|..+..++...|++++|.+.|+++++..+    .+..++..+... ....+..+.+...|..|...
T Consensus       260 ~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p----~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          260 E-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP----DDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------------
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            3 33678888999999999999999999999988776    555666666655 33445667777777777654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.82  E-value=8.3e-05  Score=73.17  Aligned_cols=126  Identities=5%  Similarity=-0.090  Sum_probs=66.2

Q ss_pred             HHHcCChhhHHHHHHHHHHC--C-CCC----ChHHHHHHHHHHHhcCChhHHHHHHHHHHhC-----CCCCCCCcHHHHH
Q 009143          198 YCRVNELDKALHLFSTMANN--G-IRP----NRVTHNILVHALCKKGLLGDAVKFLGEVLAD-----DDGKATSDVITST  265 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~--g-~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~  265 (542)
                      +...|++++|+.++++..+.  . +.|    ...+++.|..+|...|++++|+.++++.+..     |+ ..+....+++
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~-~Hp~~a~~l~  397 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHH-NNAQLGMAVM  397 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCT-TCHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHH
Confidence            34567777777777665432  0 111    1345666666777777777777666665542     22 1112334566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-----C--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQK-----N--IQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      .|...|...|++++|..++++..+.     |  .+....+.+.+..++...+.+++|..+|.++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666555431     1  111122334444455555555555555555543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.79  E-value=0.00087  Score=53.47  Aligned_cols=10  Identities=20%  Similarity=0.570  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 009143          312 ISSAFAYFCQ  321 (542)
Q Consensus       312 ~~~A~~~~~~  321 (542)
                      +++|++.|++
T Consensus        77 ~~~A~~~~~~   86 (138)
T 1klx_A           77 LRKAAQYYSK   86 (138)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.77  E-value=0.00017  Score=55.46  Aligned_cols=79  Identities=19%  Similarity=0.123  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Q 009143          241 DAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFC  320 (542)
Q Consensus       241 ~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  320 (542)
                      .|.+.+++.++..+    .+...+..+...+...|++++|...|++..+.. +.+...|..+..++...|++++|...|+
T Consensus         3 ~a~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~   77 (115)
T 2kat_A            3 AITERLEAMLAQGT----DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWE   77 (115)
T ss_dssp             CHHHHHHHHHTTTC----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC----CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34455555555444    445555555555555555555555555555543 3344555555555555555555555555


Q ss_pred             HHHH
Q 009143          321 QMLK  324 (542)
Q Consensus       321 ~~~~  324 (542)
                      +..+
T Consensus        78 ~al~   81 (115)
T 2kat_A           78 SGLA   81 (115)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.76  E-value=0.00022  Score=70.17  Aligned_cols=91  Identities=14%  Similarity=0.015  Sum_probs=47.2

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCC----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--CCCCHHHHHH
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDG----KATSDVITSTILMDSYFKNGDKFQALALWNDMFQK-----N--IQTDIVAYNV  301 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  301 (542)
                      +...|++++|+.++++.++....    ..+....+++.|...|...|++++|..++++.++.     |  .+....+++.
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            34566666666666665543110    11122345666666666666666666666555431     1  1112344555


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHH
Q 009143          302 LINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      |...|...|++++|..++++..
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            5556666666666666555544

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.73  E-value=0.0014  Score=52.29  Aligned_cols=83  Identities=7%  Similarity=-0.056  Sum_probs=37.7

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c
Q 009143          343 KQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI----HGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGR----C  414 (542)
Q Consensus       343 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~  414 (542)
                      ..+..++|.++|++..+.|   +...+..+...|..    .+++++|.+.|++..+.+   ++..+..|...|..    .
T Consensus        37 ~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~  110 (138)
T 1klx_A           37 SQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVV  110 (138)
T ss_dssp             TTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             cCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCC
Confidence            3334444444444444432   33334444444443    344555555555544442   34444444444444    4


Q ss_pred             CChHHHHHHHHHHHhCC
Q 009143          415 GDLSNAFSIRDLMLSFG  431 (542)
Q Consensus       415 g~~~~A~~~~~~m~~~~  431 (542)
                      +++++|...|++..+.|
T Consensus       111 ~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          111 KNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHCC
Confidence            55555555555554443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.70  E-value=0.00022  Score=54.82  Aligned_cols=53  Identities=13%  Similarity=0.061  Sum_probs=26.7

Q ss_pred             ccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          451 SCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      +...|++++|+..|++..+.. +.+...|..+..+|...|++++|...|++..+
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           29 YAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444555555555555555432 11334455555555555555555555555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.68  E-value=4.4e-05  Score=58.24  Aligned_cols=27  Identities=15%  Similarity=0.124  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      .++..+..++.+.|++++|.+.+++..
T Consensus        39 ~~~~~lg~~~~~~g~~~~A~~~~~~al   65 (111)
T 2l6j_A           39 VGYSNKAMALIKLGEYTQAIQMCQQGL   65 (111)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            333333333333333333333333333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.63  E-value=0.00049  Score=49.92  Aligned_cols=14  Identities=29%  Similarity=0.733  Sum_probs=5.0

Q ss_pred             HHhCCCHHHHHHHH
Q 009143          306 FCLNGDISSAFAYF  319 (542)
Q Consensus       306 ~~~~~~~~~A~~~~  319 (542)
                      +...|++++|...+
T Consensus        53 ~~~~~~~~~A~~~~   66 (91)
T 1na3_A           53 YYKQGDYDEAIEYY   66 (91)
T ss_dssp             HHHTTCHHHHHHHH
T ss_pred             HHHHhhHHHHHHHH
Confidence            33333333333333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.59  E-value=0.00061  Score=49.41  Aligned_cols=58  Identities=17%  Similarity=0.277  Sum_probs=22.0

Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 009143          193 AFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLA  251 (542)
Q Consensus       193 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  251 (542)
                      .+...+...|++++|+..+++..+.. +.+...+..+...+.+.|++++|.+.+++.+.
T Consensus        14 ~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           14 NLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            33333334444444444444333321 11233333333344444444444444444433

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.57  E-value=0.0002  Score=57.74  Aligned_cols=96  Identities=14%  Similarity=0.075  Sum_probs=48.7

Q ss_pred             CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 009143          237 GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDK----------FQALALWNDMFQKNIQTDIVAYNVLINGF  306 (542)
Q Consensus       237 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~a~~~~~~~~~~~~~~~~~~~~~li~~~  306 (542)
                      +.+++|.+.++..++..+    .+...|+.+..++...+++          ++|+..|++.++.+ +.+..+|..+..+|
T Consensus        16 ~~feeA~~~~~~Ai~l~P----~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSNP----LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            344445555555555444    4444555555544444432          35555555555443 33444555555555


Q ss_pred             HhC-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009143          307 CLN-----------GDISSAFAYFCQMLKRGFLPDVITYNTLLN  339 (542)
Q Consensus       307 ~~~-----------~~~~~A~~~~~~~~~~~~~p~~~~~~~li~  339 (542)
                      ...           |++++|++.|++..+.  .|+...|...+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            444           3666777777766665  455544444333

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.56  E-value=0.00037  Score=52.84  Aligned_cols=90  Identities=14%  Similarity=0.084  Sum_probs=61.4

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-------HH
Q 009143          260 DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD-------VI  332 (542)
Q Consensus       260 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~-------~~  332 (542)
                      +...+..+...+...|++++|.+.|++..+.. +.+...+..+..++...|++++|++.+++..+.  .|+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHH
Confidence            45667777778888888888888888877764 456777778888888888888888888887765  333       33


Q ss_pred             HHHHHHHHHHhcCCHHHHHH
Q 009143          333 TYNTLLNCLCKQGKLDEASH  352 (542)
Q Consensus       333 ~~~~li~~~~~~g~~~~A~~  352 (542)
                      .+..+..++...|+.+.|..
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHHhHhhhHh
Confidence            44444555555554444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.48  E-value=0.00069  Score=50.48  Aligned_cols=53  Identities=19%  Similarity=0.153  Sum_probs=26.0

Q ss_pred             ccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          451 SCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      +...|++++|+..|++.++.. +.+...|..+..+|...|++++|.+.+++..+
T Consensus        17 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A           17 HLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            444455555555555555432 11234455555555555555555555555443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.36  E-value=0.00056  Score=55.15  Aligned_cols=108  Identities=11%  Similarity=0.072  Sum_probs=68.2

Q ss_pred             HHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHH
Q 009143          164 CKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAV  243 (542)
Q Consensus       164 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~  243 (542)
                      .+.+.+++|.+.++...+..| .+...|..+..++...++++.+...++                         .+++|+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al~-------------------------~~~eAi   66 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQ-------------------------MIQEAI   66 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHH-------------------------HHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhHh-------------------------HHHHHH
Confidence            344555666666666655554 255555555555555555443333221                         256788


Q ss_pred             HHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          244 KFLGEVLADDDGKATSDVITSTILMDSYFKNG-----------DKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      ..|++.++.++    ....+|..+..+|...|           ++++|++.|++.++.  .|+...|...+
T Consensus        67 ~~le~AL~ldP----~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al  131 (158)
T 1zu2_A           67 TKFEEALLIDP----KKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHHHCT----TCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHhCc----CcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            88888888776    67778888888887764           788888888888876  45554444333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.23  E-value=0.0017  Score=48.27  Aligned_cols=63  Identities=19%  Similarity=0.230  Sum_probs=27.7

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          260 DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       260 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      +..++..+...+.+.|++++|+..|++..+.+ +.+...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444444444444444444444444444433 2233344444444444444444444444443

>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=97.19  E-value=0.0015  Score=63.08  Aligned_cols=87  Identities=8%  Similarity=-0.026  Sum_probs=66.3

Q ss_pred             cCChHHHHHHHHHHHh---CCCC---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhH-----cCC-CCC-hhHHHHHHH
Q 009143          454 LGHIHLALQLYDEMLR---RGIT---PD-IITYTELIKGHCARGNMKEAEEVFAKIQT-----LGL-AID-HIPFRILKK  519 (542)
Q Consensus       454 ~g~~~~A~~~~~~~~~---~g~~---p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~-~~~-~~~~~~l~~  519 (542)
                      .|++++|+.++++.++   .-+.   |+ ..+++.|..+|...|++++|..++++..+     .|. .|+ ..+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            4788888888887765   1122   23 26788999999999999999999998764     232 122 356888999


Q ss_pred             HHHhcCChhHHHHHHHHHhhc
Q 009143          520 RYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       520 ~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      .|..+|++++|..+++++++.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHH
Confidence            999999999999999998753

>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=97.02  E-value=0.011  Score=54.73  Aligned_cols=72  Identities=15%  Similarity=0.081  Sum_probs=45.3

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITY  334 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~  334 (542)
                      .+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.|++....  .|...+|
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            555666666666666666666666666666664  55666666666666666666666666666665  4554444

>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=97.00  E-value=0.0094  Score=55.28  Aligned_cols=65  Identities=12%  Similarity=0.096  Sum_probs=36.7

Q ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          293 QTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       293 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      +.++.+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            4455555555555555566666666666665553  4555555555555556666666666655555

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.92  E-value=0.0061  Score=58.91  Aligned_cols=61  Identities=8%  Similarity=-0.157  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhH-----cCC-CCC-hhHHHHHHHHHHhcCChhHHHHHHHHHh
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKIQT-----LGL-AID-HIPFRILKKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      +++.++.+|...|++++|..++++...     .|. .|+ ..+++.|...|..+|++++|..++++++
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            444555555555555555555554432     111 111 2234445555555555555555555554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.83  E-value=0.0092  Score=43.45  Aligned_cols=48  Identities=10%  Similarity=0.076  Sum_probs=34.1

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          457 IHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       457 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      .++|..++++.++.. +-++.....+...+.+.|++++|...|+++.+.
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            577777777777752 224566667777777788888888888777775

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.82  E-value=0.0029  Score=46.72  Aligned_cols=55  Identities=22%  Similarity=0.267  Sum_probs=25.7

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKATSDVI-TSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .+.+.|++++|.+.++++++..+    .+.. .+..+..++...|++++|.+.|++..+.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEP----VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCS----STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCC----CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            33444444444444444444433    3334 4444444444444555554444444443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.76  E-value=0.0046  Score=59.72  Aligned_cols=87  Identities=7%  Similarity=-0.111  Sum_probs=41.5

Q ss_pred             cCChhHHHHHHHHHHhC-----CCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--CCCCHHHHHHHH
Q 009143          236 KGLLGDAVKFLGEVLAD-----DDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK-----N--IQTDIVAYNVLI  303 (542)
Q Consensus       236 ~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~~li  303 (542)
                      .|++++|+.++++.++.     |+ ..+....+++.|...|...|++++|..++++.++.     |  .+....+++.|.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~-~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFED-SNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCT-TSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccCh-hchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            34556666666555442     11 11112344555555555555555555555554431     1  111223455555


Q ss_pred             HHHHhCCCHHHHHHHHHHHH
Q 009143          304 NGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~  323 (542)
                      ..|...|++++|+.++++..
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            55555555555555555443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.73  E-value=0.02  Score=55.30  Aligned_cols=92  Identities=10%  Similarity=-0.015  Sum_probs=41.7

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCC----CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--CCCCHHHHH
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKAT----SDVITSTILMDSYFKNGDKFQALALWNDMFQK-----N--IQTDIVAYN  300 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~  300 (542)
                      .+.+.|++++|+.++++.++.......    ....+++.++..|...|++++|+.++++.++.     |  .+....+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            344455555555555555543211111    12234555555555555555555555544321     1  111223344


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHH
Q 009143          301 VLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       301 ~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      .|...|...|++++|..++++..
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Confidence            45555555555555555554443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.70  E-value=0.016  Score=42.14  Aligned_cols=67  Identities=10%  Similarity=0.086  Sum_probs=42.1

Q ss_pred             CChHHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 009143          221 PNRVTHNILVHALCKKGL---LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKN  291 (542)
Q Consensus       221 p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  291 (542)
                      .+...+..+..++...++   .++|..++++.++.++    .++.+...+...+.+.|++++|+..|+.+.+..
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp----~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEP----YNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCc----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            345555555555544433   5666667777666665    666666666666667777777777777666653

>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=96.66  E-value=0.26  Score=43.85  Aligned_cols=93  Identities=10%  Similarity=0.020  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCh
Q 009143          347 LDEASHFYGVLSKTGVAPD---QISYKTIIQGLCIH-----GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC-GDL  417 (542)
Q Consensus       347 ~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~  417 (542)
                      ...|...+++..+.  .|+   ...|..+...|.+.     |+.++|.++|++.++.++.-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            34566666666663  344   44677777777773     78888888888887766543466777777777774 778


Q ss_pred             HHHHHHHHHHHhCCCC--CCHHHHHH
Q 009143          418 SNAFSIRDLMLSFGVS--SNVFTFNA  441 (542)
Q Consensus       418 ~~A~~~~~~m~~~~~~--p~~~~~~~  441 (542)
                      +++.+.+++.+.....  |+....+.
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            8888888887776554  55444333

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.56  E-value=0.009  Score=43.90  Aligned_cols=77  Identities=18%  Similarity=0.065  Sum_probs=56.8

Q ss_pred             ccccCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhH
Q 009143          451 SCNLGHIHLALQLYDEMLRRGITPDII-TYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDK  529 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~  529 (542)
                      +...|++++|.+.++++.+.. +.+.. .|..+..+|...|++++|.+.|++..+.... +...+..        +.+.+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~--------~~~~~   79 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD-SPALQAR--------KMVMD   79 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH--------HHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHH--------HHHHH
Confidence            667899999999999999853 22456 8889999999999999999999999986432 3333311        44555


Q ss_pred             HHHHHHHH
Q 009143          530 ARDIHQKW  537 (542)
Q Consensus       530 A~~~~~~~  537 (542)
                      +...|++.
T Consensus        80 a~~~~~~~   87 (99)
T 2kc7_A           80 ILNFYNKD   87 (99)
T ss_dssp             HHHHHCCT
T ss_pred             HHHHHHHH
Confidence            56555554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.55  E-value=0.013  Score=46.64  Aligned_cols=83  Identities=13%  Similarity=0.031  Sum_probs=48.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhHcCCCC--ChhHHHHHHHHHHhcCChhHH
Q 009143          456 HIHLALQLYDEMLRRGITPDIITYTELIKGHCARG---NMKEAEEVFAKIQTLGLAI--DHIPFRILKKRYRRMKESDKA  530 (542)
Q Consensus       456 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~~--~~~~~~~l~~~~~~~g~~~~A  530 (542)
                      .+..+.+-|.+....|. ++..+.-.+.+++++.+   +.++++.++++..+.. .|  ....+-.+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34455555555555443 45666666666666666   4446666666666643 12  234444555566677777777


Q ss_pred             HHHHHHHhhc
Q 009143          531 RDIHQKWLLR  540 (542)
Q Consensus       531 ~~~~~~~l~~  540 (542)
                      .++++++|+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            7777766554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.44  E-value=0.11  Score=55.02  Aligned_cols=102  Identities=12%  Similarity=-0.018  Sum_probs=56.7

Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Q 009143          192 NAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY  271 (542)
Q Consensus       192 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  271 (542)
                      ..++..+.+.|.+++|+++.+.         ..   .-.......|++++|.++.+.+         .+...|..+...+
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~---------~~~~~W~~la~~a  691 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE---------SAEMKWRALGDAS  691 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC---------CCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh---------CcHhHHHHHHHHH
Confidence            5566666666776666655421         10   1123345567777777665332         4566777777777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       272 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                      .+.|+++.|.+.|..+.+         |..+...+...|+.+...++-+...
T Consensus       692 l~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          692 LQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            777777777777776542         2333444444555554444433333

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.27  E-value=0.11  Score=55.14  Aligned_cols=129  Identities=14%  Similarity=0.092  Sum_probs=66.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHc
Q 009143          122 VAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRV  201 (542)
Q Consensus       122 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  201 (542)
                      ..++..+.+.|.++.|+++.+..            ..-.......|++++|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            55556666666666666544211            11123345567777775554332      3456677777777777


Q ss_pred             CChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 009143          202 NELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQAL  281 (542)
Q Consensus       202 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  281 (542)
                      ++++.|.+.|.++..         |..+...+...|+.+...++.+.....+.         ++.....|.+.|++++|.
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~---------~~~A~~~~~~~g~~~~a~  756 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK---------FNLAFNAYWIAGDIQGAK  756 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc---------hHHHHHHHHHcCCHHHHH
Confidence            777777777766542         23344444445555555544444444332         222233344455555555


Q ss_pred             HHHHH
Q 009143          282 ALWND  286 (542)
Q Consensus       282 ~~~~~  286 (542)
                      +++.+
T Consensus       757 ~~~~~  761 (814)
T 3mkq_A          757 DLLIK  761 (814)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.23  E-value=0.03  Score=41.69  Aligned_cols=55  Identities=13%  Similarity=0.084  Sum_probs=37.5

Q ss_pred             ccccCChHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          451 SCNLGHIHLALQLYDEMLRRG------ITPDIITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      +...|+++.|...+++..+.-      -.+....+..|..++.+.|++++|...++++.+.
T Consensus        15 ~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A           15 AYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            556677777777777766520      1234466777777777777777777777777765

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.19  E-value=0.18  Score=41.21  Aligned_cols=101  Identities=13%  Similarity=0.152  Sum_probs=53.1

Q ss_pred             HHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhH
Q 009143          162 ELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGD  241 (542)
Q Consensus       162 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  241 (542)
                      ...+.|+++.|.++.+++      .+...|..|.......|+++-|.+.|.+...         +..+.-.|.-.|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            344556666666655544      2455666666666666666666666655432         2233334445555555


Q ss_pred             HHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          242 AVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWND  286 (542)
Q Consensus       242 a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  286 (542)
                      ..++-+.....+.         ++.....+.-.|+++++.++|.+
T Consensus        79 L~kla~iA~~~g~---------~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           79 LSKMQNIAQTRED---------FGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcc---------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            5554444444332         33334445555666666665543

>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=96.10  E-value=0.12  Score=40.56  Aligned_cols=52  Identities=15%  Similarity=0.155  Sum_probs=25.7

Q ss_pred             CChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 009143          202 NELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       202 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  254 (542)
                      +++++|.++|+.+.+.+-.- ...|......-.+.|+++.|.+++...+..++
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            45555555555554432111 44444444444555555555555555555444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.00  E-value=0.043  Score=43.63  Aligned_cols=81  Identities=15%  Similarity=0.039  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcC---ChhHHHHHHHHHhhCC-CCCCHHhHHHHHHHHHHcCChhhHHHH
Q 009143          135 GTALWLRRKMIQKGTVPDVLTHNYLVNELCKIG---DLEKADHVIREMSEMR-PSPNCATYNAFITGYCRVNELDKALHL  210 (542)
Q Consensus       135 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~  210 (542)
                      ..+.+-|.+..+.|. ++..+...+.-++++.+   +.++++.+|+++.+.. |..+...+-.+.-++.+.|++++|.+.
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 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            344445555544443 46666666666666665   4456666666666644 211234444455556666777777776


Q ss_pred             HHHHHH
Q 009143          211 FSTMAN  216 (542)
Q Consensus       211 ~~~m~~  216 (542)
                      ++.+.+
T Consensus        94 ~~~lL~   99 (152)
T 1pc2_A           94 VRGLLQ   99 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666665

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.71  E-value=0.093  Score=46.66  Aligned_cols=87  Identities=11%  Similarity=0.009  Sum_probs=53.9

Q ss_pred             hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC-CCHH
Q 009143          240 GDAVKFLGEVLADDDGKATSDVITSTILMDSYFK-----NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN-GDIS  313 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~  313 (542)
                      ..|...++++++.++.-  .+-..|..+...|.+     .|+.++|.+.|++.++.+..-+..++......++.. |+.+
T Consensus       180 ~~A~a~lerAleLDP~~--~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDLWPSY--QEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHCTTH--HHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHhCCCc--ccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            45566666666665411  245566677766766     367777777777777664222356666666666664 6777


Q ss_pred             HHHHHHHHHHHcCCC
Q 009143          314 SAFAYFCQMLKRGFL  328 (542)
Q Consensus       314 ~A~~~~~~~~~~~~~  328 (542)
                      ++.+.+++.+.....
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            777777777765443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.69  E-value=0.15  Score=37.77  Aligned_cols=26  Identities=23%  Similarity=0.287  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                      ++..|..++.+.|+++.|...+++..
T Consensus        48 i~~~L~~~~~~~g~~~~A~~~~~~al   73 (104)
T 2v5f_A           48 VLDYLSYAVYQQGDLDKALLLTKKLL   73 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33333444444444444444444333

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.36  E-value=0.21  Score=39.20  Aligned_cols=117  Identities=9%  Similarity=0.064  Sum_probs=77.2

Q ss_pred             CHHHHHHHHHHHHhcCCh------HHHHHHHHHHHhCCCCCCH----HHHHHHHHHhhcccccccCChHHHHHHHHHHHh
Q 009143          400 EPHIWNVIIDGYGRCGDL------SNAFSIRDLMLSFGVSSNV----FTFNALILAETRGASCNLGHIHLALQLYDEMLR  469 (542)
Q Consensus       400 ~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~  469 (542)
                      |..+|-..+....+.|++      ++..++|++.... ++|+.    ..|.-+.--|+.  +...+++++|.++|+.+++
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~--~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAE--LKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHH--HHHHHCGGGCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHH--HHHhcCHHHHHHHHHHHHH
Confidence            666777777777777777      7777777777663 44432    112222211211  2334899999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHH
Q 009143          470 RGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRY  521 (542)
Q Consensus       470 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~  521 (542)
                      ..-.- ...|.....--.++|+...|.+++.+....+.+ +...+...+.-+
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k-~~~~le~a~~nl  138 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV-PLEMLEIALRNL  138 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB-CHHHHHHHHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC-cHHHHHHHHHhh
Confidence            42233 667777777777899999999999999998765 444555555444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.80  E-value=1  Score=34.59  Aligned_cols=54  Identities=11%  Similarity=0.091  Sum_probs=27.5

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCC
Q 009143          453 NLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGL  507 (542)
Q Consensus       453 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  507 (542)
                      ..|.-++-.++...+... .+|++...-.+..+|.+.|+..+|.+++.++.+.|+
T Consensus       103 ~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A          103 IQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            335555555555554321 244555555555555555555555555555555554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.73  E-value=1.4  Score=35.90  Aligned_cols=102  Identities=13%  Similarity=0.176  Sum_probs=50.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 009143          269 DSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLD  348 (542)
Q Consensus       269 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  348 (542)
                      ......|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3445556666666655544      2455566666666666666666666554332         223333444455555


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009143          349 EASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLS  391 (542)
Q Consensus       349 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  391 (542)
                      ...++-+.....|      -++.....+...|+++++.+++.+
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5444443333332      133333444445666666555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.55  E-value=0.19  Score=38.40  Aligned_cols=66  Identities=15%  Similarity=-0.023  Sum_probs=27.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHH---HHHHHHHHhHcCCC-CChhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          474 PDIITYTELIKGHCARGNMKE---AEEVFAKIQTLGLA-IDHIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       474 p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                      |+..+--.+.+++.+..+..+   ++.++++....+.+ -.....-.|.-++.+.|++++|.++++.+|+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            344444444444444444333   44444444433200 0122222333344455555555555554443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.52  E-value=2.6e-05  Score=73.60  Aligned_cols=112  Identities=12%  Similarity=0.065  Sum_probs=46.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      .|..|..+..+.|++.+|++-|-+.      -|+..|..++....+.|.+++-++.+....+..-.|  ..=+.|+-+|+
T Consensus        56 VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayA  127 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALA  127 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHH
T ss_pred             HHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHH
Confidence            3444555555555444444332111      133344445555555555555544444333322112  22234445555


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFL  246 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~  246 (542)
                      +.++..+-.+++.       .||..-...+.+-|...|.++.|.-+|
T Consensus       128 k~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKily  167 (624)
T 3lvg_A          128 KTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLY  167 (624)
T ss_dssp             TSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTG
T ss_pred             hhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHH
Confidence            5544443332221       133333444444444444444444333

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.20  E-value=0.18  Score=38.45  Aligned_cols=66  Identities=14%  Similarity=0.051  Sum_probs=28.9

Q ss_pred             CChhhHHHHHHHHHHcCChhH---HHHHHHHHhhCC-CCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHH
Q 009143          151 PDVLTHNYLVNELCKIGDLEK---ADHVIREMSEMR-PSPNCATYNAFITGYCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       151 p~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  216 (542)
                      |+..+-..+.-++.+......   ++.+++++.+.+ |.......-.|.-++.+.|++++|.+.++.+.+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444444444444444443333   445555544432 111222233334444455555555555555544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.16  E-value=6.7  Score=41.33  Aligned_cols=87  Identities=14%  Similarity=-0.062  Sum_probs=36.3

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCCh
Q 009143          378 IHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHI  457 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~  457 (542)
                      -.|+.+....++..+.+.. .-+..-.-.+.-++...|+.+.+..+.+.+... ..|....-.++..+|   +|+..|+.
T Consensus       502 GTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~-~dp~vRygaa~algl---AyaGTGn~  576 (963)
T 4ady_A          502 GTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLAS-DESLLRYGGAFTIAL---AYAGTGNN  576 (963)
T ss_dssp             TCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHH---HTTTSCCH
T ss_pred             ccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHH---HhcCCCCH
Confidence            4455544455555444421 111111222222333455555555555555542 122222222222222   25555665


Q ss_pred             HHHHHHHHHHHh
Q 009143          458 HLALQLYDEMLR  469 (542)
Q Consensus       458 ~~A~~~~~~~~~  469 (542)
                      ....++++.+.+
T Consensus       577 ~aIq~LL~~~~~  588 (963)
T 4ady_A          577 SAVKRLLHVAVS  588 (963)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcc
Confidence            555555555554

>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=94.03  E-value=1  Score=42.60  Aligned_cols=69  Identities=14%  Similarity=0.149  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 009143          264 STILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK-----RGFLPDVIT  333 (542)
Q Consensus       264 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~p~~~~  333 (542)
                      ...++..+...|+++++...+..+.... +.+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3445566666777777776666666554 55666777777777777777777777766543     366666544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.58  E-value=1.9  Score=33.11  Aligned_cols=66  Identities=14%  Similarity=0.146  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Q 009143          261 VITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGF  327 (542)
Q Consensus       261 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  327 (542)
                      .......++.....|.-++-.+++..+.... +|++...-.+..+|.+.|+..+|.+++.++-+.|+
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~n~-~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhccC-CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            3444555666666777777777777754332 56677777777777777777777777777777664

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=93.30  E-value=9.5  Score=40.23  Aligned_cols=17  Identities=18%  Similarity=0.327  Sum_probs=8.0

Q ss_pred             HHHcCChhHHHHHHHHH
Q 009143          163 LCKIGDLEKADHVIREM  179 (542)
Q Consensus       163 ~~~~g~~~~A~~~~~~~  179 (542)
                      ....|+.+++..++...
T Consensus       384 lIh~g~~~~gl~~L~~y  400 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPY  400 (963)
T ss_dssp             HHTSSCTTTHHHHHTTT
T ss_pred             hhccCchHHHHHHHHHh
Confidence            34445555554444443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.89  E-value=1.1  Score=46.03  Aligned_cols=125  Identities=13%  Similarity=0.040  Sum_probs=79.3

Q ss_pred             HHHHHHcCC-hhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC-ChhhHHHHHHHHHHC------CCCCCh--------
Q 009143          160 VNELCKIGD-LEKADHVIREMSEMRPSPNCATYNAFITGYCRVN-ELDKALHLFSTMANN------GIRPNR--------  223 (542)
Q Consensus       160 i~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~------g~~p~~--------  223 (542)
                      +..+...|+ .+.|..+|+++.+..+..+......++..+.+.+ +--+|.+++.+..+.      ...+..        
T Consensus       255 l~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~  334 (754)
T 4gns_B          255 KSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMN  334 (754)
T ss_dssp             HHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHH
T ss_pred             HHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccC
Confidence            333333555 5789999999888665333222233333333332 223455555444321      112111        


Q ss_pred             ---HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009143          224 ---VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMF  288 (542)
Q Consensus       224 ---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  288 (542)
                         .....-.+.+...|+++.|+++-++.....|    .+-.+|..|..+|.+.|+++.|+-.++.+.
T Consensus       335 ~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aP----seF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          335 CMSDLLNIQTNFLLNRGDYELALGVSNTSTELAL----DSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----SCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCc----hhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence               1222234556678999999999999998776    888999999999999999999998888763

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.81  E-value=4.5  Score=39.00  Aligned_cols=153  Identities=12%  Similarity=0.079  Sum_probs=75.3

Q ss_pred             CCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHH----Hhc
Q 009143          275 GDKFQALALWNDMFQK-----NIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR-GFLPDVITYNTLLNCL----CKQ  344 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~p~~~~~~~li~~~----~~~  344 (542)
                      |++++|++.+-.+.+.     +..........++..|...++++...+.+..+... |..+  .....+++.+    ...
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhcC
Confidence            6677777766555432     33445666777777888888888777766655443 2222  2222333222    222


Q ss_pred             CCHHHHHH--HHHHHHH--CC-CCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHH
Q 009143          345 GKLDEASH--FYGVLSK--TG-VAP---DQISYKTIIQGLCIHGDIVKAREFLLSMLEK--SVVPE---PHIWNVIIDGY  411 (542)
Q Consensus       345 g~~~~A~~--~~~~~~~--~~-~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~---~~~~~~li~~~  411 (542)
                      ...+....  +.+....  .| +-.   .......|...|...|++.+|.+++..+...  +....   ...+...+..|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            22222111  1111100  00 001   0112244555666667777777766666431  11111   23455555666


Q ss_pred             HhcCChHHHHHHHHHHHh
Q 009143          412 GRCGDLSNAFSIRDLMLS  429 (542)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~  429 (542)
                      ...+++.+|..++.++..
T Consensus       188 l~~~d~~~a~~~~~ki~~  205 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILK  205 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            666666666666666655

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.81  E-value=0.13  Score=49.15  Aligned_cols=229  Identities=14%  Similarity=0.082  Sum_probs=144.2

Q ss_pred             HHHHHHhhCCCCCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 009143          100 RLKTMRDTGPVRCTLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREM  179 (542)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  179 (542)
                      ++.+..+++.    -..|+..|..+|.+..+.|++++-+..+.-..+..  -++..=+.|+-+|++.+++.+-    ++.
T Consensus        69 ~v~eAIdsyI----kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~el----Eef  138 (624)
T 3lvg_A           69 MVKEAIDSYI----KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAEL----EEF  138 (624)
T ss_dssp             SCTTTTTSSC----CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTT----TST
T ss_pred             chHHHHHHHH----hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHH----HHH
Confidence            4445555543    13477789999999999999999998887666552  3555667899999999998776    333


Q ss_pred             hhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCC--------------------CCCChHHHHHHHHHHHhcCCh
Q 009143          180 SEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNG--------------------IRPNRVTHNILVHALCKKGLL  239 (542)
Q Consensus       180 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--------------------~~p~~~~~~~l~~~~~~~g~~  239 (542)
                      +   -.||..-...+.+-|...|.++.|.-+|..+....                    ---++.||..+-.+|...+++
T Consensus       139 l---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~Ef  215 (624)
T 3lvg_A          139 I---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEF  215 (624)
T ss_dssp             T---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTT
T ss_pred             H---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHH
Confidence            3   23566666777888888888888777775542210                    122567888888888888888


Q ss_pred             hHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHH
Q 009143          240 GDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYF  319 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  319 (542)
                      ..|.-.--.++-... .       ...++..|-..|.+++-+.+++.-.... ......|+-|.-.|++- ++++..+.+
T Consensus       216 rLAqicGLniIvhad-e-------L~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHl  285 (624)
T 3lvg_A          216 RLAQMCGLHIVVHAD-E-------LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHL  285 (624)
T ss_dssp             TTTTHHHHHHHCCSS-C-------CSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHH
T ss_pred             HHHHHhcchhcccHH-H-------HHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHH
Confidence            777665555543322 1       1234556677777777777777766433 45666777776666654 445544444


Q ss_pred             HHHHHcCCCC-------CHHHHHHHHHHHHhcCCHHHHH
Q 009143          320 CQMLKRGFLP-------DVITYNTLLNCLCKQGKLDEAS  351 (542)
Q Consensus       320 ~~~~~~~~~p-------~~~~~~~li~~~~~~g~~~~A~  351 (542)
                      +....+=-.|       ....|.-++-.|.+-.++|.|.
T Consensus       286 klf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          286 ELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             TTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            4322210011       2233555555566555555543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.69  E-value=12  Score=35.91  Aligned_cols=175  Identities=10%  Similarity=0.066  Sum_probs=96.1

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCChhhHHHHHHHH----HHcCChhHH--HHHHHHHhh---C
Q 009143          113 TLETDYRRHVAVIRDLCLGGKIGTALWLRRKMIQK-GTVPDVLTHNYLVNEL----CKIGDLEKA--DHVIREMSE---M  182 (542)
Q Consensus       113 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~li~~~----~~~g~~~~A--~~~~~~~~~---~  182 (542)
                      +..........++..+...|+++...+.+..+.+. |..+.  ....+++.+    ......+..  ..+.+....   .
T Consensus        51 d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~  128 (445)
T 4b4t_P           51 DLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTEN  128 (445)
T ss_dssp             STTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSC
T ss_pred             chhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhcc
Confidence            34455667788888888999998887777766654 32222  223333322    223332221  111111111   0


Q ss_pred             CCCC---CHHhHHHHHHHHHHcCChhhHHHHHHHHHHC--CCCCC---hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 009143          183 RPSP---NCATYNAFITGYCRVNELDKALHLFSTMANN--GIRPN---RVTHNILVHALCKKGLLGDAVKFLGEVLADDD  254 (542)
Q Consensus       183 ~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  254 (542)
                      ..-.   .......|...+...|++.+|.+++..+...  |....   ...+...++.|...+++..|..++.++.....
T Consensus       129 kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~  208 (445)
T 4b4t_P          129 KIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTF  208 (445)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhc
Confidence            0001   1123355677788888888888888877532  21111   24556667777788888888777776532100


Q ss_pred             -CCCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          255 -GKATSD--VITSTILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       255 -~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                       ...+++  ...+...+..+...+++.+|.+.|.++.+
T Consensus       209 ~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          209 KNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence             010022  24556666777777777777777666653

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.54  E-value=3.1  Score=31.87  Aligned_cols=69  Identities=10%  Similarity=0.022  Sum_probs=43.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          472 ITPDIITYTELIKGHCARGNM---KEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       472 ~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      -.|+..+--.+.+++.+..+.   .+++.++++..+.+..-....+--|.-++.+.|++++|.++.+.+|+.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            345666655666777765554   356777777666542223444555666777777777777777777654

>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=90.53  E-value=1.1  Score=42.49  Aligned_cols=71  Identities=14%  Similarity=0.096  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHH
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ-----KNIQTDIVAY  299 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~  299 (542)
                      +...++..+...|+.+++...+..+...++    .+...+..+|.++.+.|+..+|++.|+...+     .|+.|+..+-
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P----~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHP----YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            345567788899999999999999998887    8889999999999999999999999988754     3888887653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.09  E-value=1.9  Score=44.32  Aligned_cols=125  Identities=14%  Similarity=0.069  Sum_probs=80.7

Q ss_pred             HHHHHHHHHcCC-hhhHHHHHHHHHHCCCCCChHHHH--HHHHHHHhcC-ChhHHHHHHHHHHhC-------CCCCCCCc
Q 009143          192 NAFITGYCRVNE-LDKALHLFSTMANNGIRPNRVTHN--ILVHALCKKG-LLGDAVKFLGEVLAD-------DDGKATSD  260 (542)
Q Consensus       192 ~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~--~l~~~~~~~g-~~~~a~~~~~~~~~~-------~~~~~~~~  260 (542)
                      ..++..+...++ .+.|..+++++...  .|...++.  .++..+.+.+ +--+|.+++.+.++.       -. .  .+
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~--~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~-~--~~  326 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKK--DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLP-P--RD  326 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCS-S--CC
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhc-c--cc
Confidence            444555555566 58899999999875  34433322  2333333333 223466666655431       11 1  11


Q ss_pred             HH----------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Q 009143          261 VI----------TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQM  322 (542)
Q Consensus       261 ~~----------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  322 (542)
                      ..          ....=.+-+...|+++-|+++-++..... |.+-.+|..|..+|...|+++.|+-.+..+
T Consensus       327 ~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          327 ADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            11          12222344567899999999999998874 567899999999999999999999998876

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.59  E-value=6.1  Score=30.72  Aligned_cols=68  Identities=10%  Similarity=0.026  Sum_probs=39.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHH---HHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          473 TPDIITYTELIKGHCARGNMK---EAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       473 ~p~~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                      .|+..+--.+.+++.+..+.+   +++.++++....+..-.....-.|.-++.+.|++++|.++.+.+|+.
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            455555555666666655443   46666666665432223334444555667777777777777776654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.65  E-value=9.2  Score=42.05  Aligned_cols=86  Identities=16%  Similarity=0.147  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDI----VAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTL  337 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l  337 (542)
                      .-|..++..+-+.+.++.+.+.-....+...+.+.    ..|..+.+++...|++++|...+-.+.....  -...+..+
T Consensus       900 ~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~L  977 (1139)
T 4fhn_B          900 CYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDF  977 (1139)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHH
Confidence            45666777777777777777666665543211111    2466677777777777777777766665432  23455556


Q ss_pred             HHHHHhcCCHHH
Q 009143          338 LNCLCKQGKLDE  349 (542)
Q Consensus       338 i~~~~~~g~~~~  349 (542)
                      +...|..|..+.
T Consensus       978 V~~lce~~~~~~  989 (1139)
T 4fhn_B          978 VNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHCCHHH
T ss_pred             HHHHHhCCChhh
Confidence            666665555444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.69  E-value=16  Score=33.24  Aligned_cols=82  Identities=12%  Similarity=0.114  Sum_probs=48.1

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALI  443 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  443 (542)
                      -|+.....+...|.+.+++.+|...|-  .  +-.+.+..+..++.-+...+...++              +...-.+++
T Consensus       134 Gdp~LH~~ig~~~~~e~~~~~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~e~--------------dlfiaRaVL  195 (336)
T 3lpz_A          134 GDPELHHVVGTLYVEEGEFEAAEKHLV--L--GTKESPEVLARMEYEWYKQDESHTA--------------PLYCARAVL  195 (336)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGGGH--------------HHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH--h--cCCchHHHHHHHHHHHHHhcCCccH--------------HHHHHHHHH
Confidence            456677778888888889888887773  2  3233335665555444444432222              223333334


Q ss_pred             HHhhcccccccCChHHHHHHHHHHHh
Q 009143          444 LAETRGASCNLGHIHLALQLYDEMLR  469 (542)
Q Consensus       444 ~~~~~~~~~~~g~~~~A~~~~~~~~~  469 (542)
                      .      |...+++..|..+++...+
T Consensus       196 ~------yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          196 P------YLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             H------HHHTTCHHHHHHHHHHHHH
T ss_pred             H------HHHhCCHHHHHHHHHHHHH
Confidence            3      4445788888887766553

>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=87.01  E-value=20  Score=33.62  Aligned_cols=92  Identities=16%  Similarity=-0.014  Sum_probs=44.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHH--
Q 009143          336 TLLNCLCKQGKLDEASHFYGVLSKTGVAPD-----QISYKTIIQGLCIHGDIVKAREFLLSMLEK--SVVPEPHIWNV--  406 (542)
Q Consensus       336 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~--  406 (542)
                      .++..|...|++.+|.+++..+.+.=-..|     ..++..-++.|...+++.++...+......  .+.+++..-..  
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            455566666666666666655544211111     123444445556666666666666555432  11123322111  


Q ss_pred             --HHHHHH-hcCChHHHHHHHHHH
Q 009143          407 --IIDGYG-RCGDLSNAFSIRDLM  427 (542)
Q Consensus       407 --li~~~~-~~g~~~~A~~~~~~m  427 (542)
                        -+..+. ..++|..|...|-+.
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHH
Confidence              122334 566666666665554

>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=86.96  E-value=4.1  Score=29.36  Aligned_cols=64  Identities=3%  Similarity=0.041  Sum_probs=46.8

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHH
Q 009143          456 HIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKR  520 (542)
Q Consensus       456 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~  520 (542)
                      +.-+..+-++.+....+.|++....+.+++|.+.+++.-|.++++-.+.. ..+...+|..++.-
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqE   88 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   88 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHH
Confidence            44556666677777778889988888999999999999999998887764 22334556666543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=86.23  E-value=19  Score=32.51  Aligned_cols=80  Identities=13%  Similarity=-0.011  Sum_probs=46.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009143          365 DQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRC---GDLSNAFSIRDLMLSFGVSSNVFTFNA  441 (542)
Q Consensus       365 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~~~~p~~~~~~~  441 (542)
                      ++.....+...|.+.|++.+|...|-.    +-.-+...+..++.-+...   |...++--..-              .+
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i~----~~~~s~~~~a~~l~~w~~~~~~~~~~e~dlf~~--------------Ra  194 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFML----GTHDSMIKYVDLLWDWLCQVDDIEDSTVAEFFS--------------RL  194 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHT----SCHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHH--------------HH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHh----CCCccHHHHHHHHHHHHHhcCCCCcchHHHHHH--------------HH
Confidence            566777888888888888888876642    1111344555555444444   54444322222              22


Q ss_pred             HHHHhhcccccccCChHHHHHHHHHHH
Q 009143          442 LILAETRGASCNLGHIHLALQLYDEML  468 (542)
Q Consensus       442 ll~~~~~~~~~~~g~~~~A~~~~~~~~  468 (542)
                      ++.      |...|++..|..+++...
T Consensus       195 VL~------yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          195 VFN------YLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHH------HHHTTBHHHHHHHHHHHH
T ss_pred             HHH------HHHhcCHHHHHHHHHHHH
Confidence            232      334588888888888765

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=85.89  E-value=7.8  Score=29.69  Aligned_cols=67  Identities=12%  Similarity=0.117  Sum_probs=32.7

Q ss_pred             CCChhhHHHHHHHHHHcCCh---hHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHH
Q 009143          150 VPDVLTHNYLVNELCKIGDL---EKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       150 ~p~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  216 (542)
                      .|+..+-....-++.+..+.   .+++.+++++.+.++......+-.|.-++.+.|++++|.+..+.+.+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            34444444444444444332   34555555555444322333444445555555555555555555554

>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=85.69  E-value=24  Score=33.16  Aligned_cols=96  Identities=16%  Similarity=0.105  Sum_probs=55.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHH-
Q 009143          228 ILVHALCKKGLLGDAVKFLGEVLADDDG--KATSDVITSTILMDSYFKNGDKFQALALWNDMFQK--NIQTDIVAYNVL-  302 (542)
Q Consensus       228 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l-  302 (542)
                      .++..|...|++.+|.+++.++.+.-..  ....-..++..-+..|...+++..+...+......  .+.+++..-..+ 
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            4667777777777777777666653110  00123445666677777788888877777766432  222333322211 


Q ss_pred             ---HHHHH-hCCCHHHHHHHHHHHH
Q 009143          303 ---INGFC-LNGDISSAFAYFCQML  323 (542)
Q Consensus       303 ---i~~~~-~~~~~~~A~~~~~~~~  323 (542)
                         .-.+. ..+++.+|...|-+..
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHHH
Confidence               22345 6778888777776654

>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=85.29  E-value=8.6  Score=27.75  Aligned_cols=49  Identities=8%  Similarity=0.051  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .-+..+-++.+...++.|++....+.+++|.+.+++..|.++|+-.+.+
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3455555566666666666666666666666666666666666665544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.11  E-value=19  Score=39.48  Aligned_cols=89  Identities=19%  Similarity=0.136  Sum_probs=66.6

Q ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 009143          295 DIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDV----ITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYK  370 (542)
Q Consensus       295 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  370 (542)
                      -..-|..++..+-+.+.++.+.++-....+.....+.    ..|..+.+++...|++++|...+-.+.....  -.....
T Consensus       898 l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr  975 (1139)
T 4fhn_B          898 LSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLL  975 (1139)
T ss_dssp             SHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHH
Confidence            3455788888999999999999888877765322221    2578889999999999999999988776543  356778


Q ss_pred             HHHHHHHhcCCHHHH
Q 009143          371 TIIQGLCIHGDIVKA  385 (542)
Q Consensus       371 ~li~~~~~~g~~~~A  385 (542)
                      .++..+|..|..+.-
T Consensus       976 ~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          976 DFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HHHHHHHHHCCHHHH
T ss_pred             HHHHHHHhCCChhhh
Confidence            888888877765443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=84.51  E-value=8.2  Score=30.93  Aligned_cols=62  Identities=13%  Similarity=0.154  Sum_probs=43.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCh-------hhHHHHHHHHHHcCChhHHHHHHHHHhh
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKG-TVPDV-------LTHNYLVNELCKIGDLEKADHVIREMSE  181 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~~~~  181 (542)
                      ++-.-+..+...|.++.|+-+.+.+.... ..|+.       .++..+.+++...|++.+|...|++.++
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            45556677778888888887777755431 22332       2556777888889999999888888643

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=83.22  E-value=10  Score=27.20  Aligned_cols=79  Identities=14%  Similarity=0.073  Sum_probs=46.3

Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHH
Q 009143          132 GKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLF  211 (542)
Q Consensus       132 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  211 (542)
                      ...++|..+-+.+...|.  ...+--.-+..+...|++++|..+.+.+    +.||...|-.|-..  +.|--+++..-+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce~--rlGl~s~le~rL   92 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALCEY--RLGLGSALESRL   92 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHHH--HHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHHH--hcccHHHHHHHH
Confidence            445666666666665532  1111112223355678888886655544    46777777666554  567777777777


Q ss_pred             HHHHHCC
Q 009143          212 STMANNG  218 (542)
Q Consensus       212 ~~m~~~g  218 (542)
                      .++...|
T Consensus        93 ~~la~sg   99 (116)
T 2p58_C           93 NRLARSQ   99 (116)
T ss_dssp             HHHTTCC
T ss_pred             HHHHhCC
Confidence            6666554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=83.16  E-value=26  Score=31.59  Aligned_cols=25  Identities=16%  Similarity=0.301  Sum_probs=13.3

Q ss_pred             ChHHHHHHHHHHHhcCChhHHHHHH
Q 009143          222 NRVTHNILVHALCKKGLLGDAVKFL  246 (542)
Q Consensus       222 ~~~~~~~l~~~~~~~g~~~~a~~~~  246 (542)
                      ++.....+...|.+.|++.+|+..|
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            4444555555555555555555444

>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=82.28  E-value=15  Score=28.16  Aligned_cols=61  Identities=10%  Similarity=0.073  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLL  338 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li  338 (542)
                      .-+..+-++.+...++.|++....+.+++|.+.+++..|.++|+-.+.+ +.+...+|..++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            3355556666666677777777777777777777777777777766654 233344455444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.95  E-value=7.8  Score=37.11  Aligned_cols=59  Identities=14%  Similarity=-0.070  Sum_probs=26.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 009143          369 YKTIIQGLCIHGDIVKAREFLLSMLEKS--VVPEPHIWNVIIDGYGRCGDLSNAFSIRDLM  427 (542)
Q Consensus       369 ~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  427 (542)
                      ...+...|.+.|++++|.+.+.++....  ...-...+-.++..+...+++..+...+.++
T Consensus       134 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka  194 (429)
T 4b4t_R          134 WINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAV  194 (429)
T ss_dssp             CHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            3344444444444444444444444321  1112233444444455555555555554444

>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=81.94  E-value=45  Score=33.51  Aligned_cols=116  Identities=11%  Similarity=-0.034  Sum_probs=62.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHH----HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccC
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNV----IIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLG  455 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g  455 (542)
                      .+.+.|..++....+... .+......    +...+...+...++...+..........+...|..-.       ..+.|
T Consensus       228 ~d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~r~-------Alr~~  299 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRM-------ALGTG  299 (618)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHH-------HHHHT
T ss_pred             cCHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccCCChHHHHHHHHH-------HHHCC
Confidence            367788888877764332 23332222    2222333443455666666654432222222232221       22457


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 009143          456 HIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFAKIQT  504 (542)
Q Consensus       456 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  504 (542)
                      +++.|...|+.|..... ....-.--+.+++...|+.++|..+|+++..
T Consensus       300 d~~~a~~~~~~l~~~~~-~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          300 DRRGLNTWLARLPMEAK-EKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             CHHHHHHHHHHSCTTGG-GSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHcccccc-ccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            88888888877765311 1233334556677777888888888877754

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=81.59  E-value=6.4  Score=31.54  Aligned_cols=59  Identities=8%  Similarity=0.050  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCC-CCCCH-------HhHHHHHHHHHHcCChhhHHHHHHHH
Q 009143          156 HNYLVNELCKIGDLEKADHVIREMSEMR-PSPNC-------ATYNAFITGYCRVNELDKALHLFSTM  214 (542)
Q Consensus       156 ~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m  214 (542)
                      +..-+..+...|.++.|+-+...+.... ..|+.       .++..+.+++...|++..|...|++.
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3344455555666666655544433211 11221       13344455555556666666666554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	542
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	9e-08

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 52.0 bits (123), Expect = 9e-08
 Identities = 35/204 (17%), Positives = 67/204 (32%), Gaps = 10/204 (4%)

Query: 152 DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLF 211
             +  + L       G++  A H   +   + P+     Y             D+A+  +
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAY 226

Query: 212 STMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSY 271
               +         H  L     ++GL+  A+      +                L ++ 
Sbjct: 227 LRALSLSPNHAV-VHGNLACVYYEQGLIDLAIDTYRRAIELQ----PHFPDAYCNLANAL 281

Query: 272 FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPD- 330
            + G   +A   +N   +    T   + N L N     G+I  A   + + L+    P+ 
Sbjct: 282 KEKGSVAEAEDCYNTALR-LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEF 338

Query: 331 VITYNTLLNCLCKQGKLDEASHFY 354
              ++ L + L +QGKL EA   Y
Sbjct: 339 AAAHSNLASVLQQQGKLQEALMHY 362

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	542
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.32
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.31
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.3
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.27
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.19
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.17
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.12
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.1
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.1
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.09
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.72
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.64
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.58
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.56
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.56
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.56
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.51
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.49
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.49
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.46
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.37
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.32
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.22
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.21
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.19
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.19
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.12
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.11
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.06
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.99
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.96
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.96
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.91
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.88
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.87
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.87
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.86
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.82
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.82
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.76
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.74
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.67
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.64
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.61
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.53
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.25
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.17
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.93
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.82
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.16
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.08
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.62
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.24
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.12
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.39
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.72
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	85.25
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	82.27
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.39

>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=3e-22  Score=192.38  Aligned_cols=383  Identities=15%  Similarity=0.079  Sum_probs=320.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCC
Q 009143          124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNE  203 (542)
Q Consensus       124 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  203 (542)
                      +...+.+.|++++|++.++++++.. +-++.++..+...|.+.|++++|.+.|+++.+..|. +..+|..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcc
Confidence            4566788999999999999999863 336788999999999999999999999999987763 67899999999999999


Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALAL  283 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  283 (542)
                      +++|+..+....+.. +.+..............+....+............    ................+....+...
T Consensus        83 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  157 (388)
T d1w3ba_          83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP----DLYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT----TCTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             ccccccccccccccc-ccccccccccccccccccccccccccccccccccc----ccccccccccccccccchhhhhHHH
Confidence            999999999998764 33555566666666677777777777777766555    5666777778888888999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 009143          284 WNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA  363 (542)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  363 (542)
                      +....... +.+...+..+...+...|++++|...+++..+.. +-+...+..+...+...|++++|...+......+ +
T Consensus       158 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~  234 (388)
T d1w3ba_         158 YLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-P  234 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-T
T ss_pred             HHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-h
Confidence            88887765 5677888999999999999999999999998864 3456788899999999999999999999988864 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          364 PDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALI  443 (542)
Q Consensus       364 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  443 (542)
                      .+...+..+...+.+.|++++|...++++++..+. +..+|..+...+...|++++|.+.++...... +.+...+..+.
T Consensus       235 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  312 (388)
T d1w3ba_         235 NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLA  312 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHH
Confidence            46777888899999999999999999999987665 78899999999999999999999999988742 34455555555


Q ss_pred             HHhhcccccccCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHH
Q 009143          444 LAETRGASCNLGHIHLALQLYDEMLRRGITP-DIITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYR  522 (542)
Q Consensus       444 ~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~  522 (542)
                      ..     +...|++++|++.|++..+.  .| +..++..+..+|.+.|++++|...|++..+..+ -+...|..+..+|.
T Consensus       313 ~~-----~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~lg~~~~  384 (388)
T d1w3ba_         313 NI-----KREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGNTLK  384 (388)
T ss_dssp             HH-----HHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT-TCHHHHHHHHHHHH
T ss_pred             HH-----HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            54     67889999999999999875  34 467889999999999999999999999988632 25778999999998


Q ss_pred             hcCC
Q 009143          523 RMKE  526 (542)
Q Consensus       523 ~~g~  526 (542)
                      +.||
T Consensus       385 ~~~D  388 (388)
T d1w3ba_         385 EMQD  388 (388)
T ss_dssp             HTCC
T ss_pred             HcCC
Confidence            8876

>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=99.92  E-value=4.2e-21  Score=184.25  Aligned_cols=364  Identities=15%  Similarity=0.072  Sum_probs=305.1

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 009143          159 LVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGL  238 (542)
Q Consensus       159 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  238 (542)
                      +...+.+.|++++|.+.++++.+..| .+...+..+..+|.+.|++++|...+++..+.. +-+..++..+...+.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            45667889999999999999998766 368889999999999999999999999998763 3357889999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Q 009143          239 LGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAY  318 (542)
Q Consensus       239 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  318 (542)
                      +++|.+.+.......+    ................+....+........... .................+....+...
T Consensus        83 ~~~A~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKP----DFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             cccccccccccccccc----ccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHH
Confidence            9999999999999776    666777777777777777777777776666554 44555566667777888999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 009143          319 FCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV  398 (542)
Q Consensus       319 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  398 (542)
                      +.+..... +.+...+..+...+...|++++|...+....+.. +-+...+..+...+...|++++|...+.+....+..
T Consensus       158 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  235 (388)
T d1w3ba_         158 YLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN  235 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT
T ss_pred             HHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh
Confidence            88887763 4456778888899999999999999999988764 335678888999999999999999999999887654


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHH
Q 009143          399 PEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN-VFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDII  477 (542)
Q Consensus       399 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  477 (542)
                       +...+..+...+.+.|++++|...|++..+.  .|+ ...+..+...     +...|++++|.+.++...... +.+..
T Consensus       236 -~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~-----~~~~~~~~~A~~~~~~~~~~~-~~~~~  306 (388)
T d1w3ba_         236 -HAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANA-----LKEKGSVAEAEDCYNTALRLC-PTHAD  306 (388)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHH-----HHHHSCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             -HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH-----HHHcCCHHHHHHHHHhhhccC-Cccch
Confidence             7788899999999999999999999999884  444 4555555554     677899999999999988753 45678


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          478 TYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       478 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      .+..+...+...|++++|.+.+++..+... .+..++..+..+|.+.|++++|.+.|+++++.+
T Consensus       307 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         307 SLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            889999999999999999999999988633 367788999999999999999999999998765

>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=99.65  E-value=8.9e-14  Score=129.21  Aligned_cols=230  Identities=13%  Similarity=0.075  Sum_probs=149.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHc
Q 009143          122 VAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRV  201 (542)
Q Consensus       122 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  201 (542)
                      -.....+.+.|++++|+..|+++++.. +-+..+|..+..+|...|++++|...|++..+..|. +...|..+...|...
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~  100 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-ccccccccccccccc
Confidence            346667889999999999999999874 336788999999999999999999999999887763 678889999999999


Q ss_pred             CChhhHHHHHHHHHHCCCCCChHHH----------------HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          202 NELDKALHLFSTMANNGIRPNRVTH----------------NILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       202 g~~~~A~~~~~~m~~~g~~p~~~~~----------------~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      |++++|.+.+++.....  |+....                ...+..+...+...++.+.+.+++...+..  .+..++.
T Consensus       101 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~--~~~~~~~  176 (323)
T d1fcha_         101 SLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTS--IDPDVQC  176 (323)
T ss_dssp             TCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTS--CCHHHHH
T ss_pred             ccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcc--cccccch
Confidence            99999999999987642  322111                011122223344555555555555544322  3445555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG  345 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  345 (542)
                      .+...+...|++++|...+++..... +-+..+|..+...+...|++++|++.|++..+.. +-+...+..+..+|.+.|
T Consensus       177 ~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  254 (323)
T d1fcha_         177 GLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLG  254 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCC
Confidence            55555666666666666666555443 3345555555555566666666666665555542 223444555555555555


Q ss_pred             CHHHHHHHHHHHHH
Q 009143          346 KLDEASHFYGVLSK  359 (542)
Q Consensus       346 ~~~~A~~~~~~~~~  359 (542)
                      ++++|...|++..+
T Consensus       255 ~~~~A~~~~~~al~  268 (323)
T d1fcha_         255 AHREAVEHFLEALN  268 (323)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555444

>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=99.60  E-value=5.4e-13  Score=123.81  Aligned_cols=92  Identities=14%  Similarity=0.036  Sum_probs=54.4

Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHh
Q 009143          194 FITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFK  273 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  273 (542)
                      ....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|++++|...+.++++..+    .+...+..++..+..
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~la~~~~~   99 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP----DNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc----ccccccccccccccc
Confidence            3444556666666666666666542 22355566666666666666666666666666554    455566666666666


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 009143          274 NGDKFQALALWNDMFQK  290 (542)
Q Consensus       274 ~g~~~~a~~~~~~~~~~  290 (542)
                      .|++++|.+.+++....
T Consensus       100 ~~~~~~A~~~~~~~~~~  116 (323)
T d1fcha_         100 ESLQRQACEILRDWLRY  116 (323)
T ss_dssp             TTCHHHHHHHHHHHHHT
T ss_pred             cccccccccchhhHHHh
Confidence            66666666666665543

>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=99.32  E-value=5.9e-10  Score=102.03  Aligned_cols=198  Identities=13%  Similarity=0.055  Sum_probs=147.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcC-ChhHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009143          119 RRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIG-DLEKADHVIREMSEMRPSPNCATYNAFITG  197 (542)
Q Consensus       119 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  197 (542)
                      ..|+.+...+.+.+.+++|+.+++++++.. +-+..+|+....++...| ++++|++.++...+..|+ +..+|+.+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHH
Confidence            467777777888888899999999988863 235667788888888776 478888888888887764 77888888888


Q ss_pred             HHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC-
Q 009143          198 YCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD-  276 (542)
Q Consensus       198 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-  276 (542)
                      +.+.|++++|++.++++.+.. +-+...|..+...+.+.|++++|++.++++++.++    .+..+|+.+...+.+.+. 
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p----~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV----RNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCS
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC----ccHHHHHHHHHHHHHcccc
Confidence            888888998988888888753 33677888888888888888888888888888777    777788877777766655 


Q ss_pred             -----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          277 -----KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       277 -----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                           +++|++.+....+.. +.+...|+.+...+.. ...+++.+.+....+.
T Consensus       197 ~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence                 456777777766654 4466666666554433 3345566666655544

>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=99.31  E-value=6.6e-10  Score=101.71  Aligned_cols=249  Identities=11%  Similarity=0.045  Sum_probs=164.7

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcC-ChhhHHHHHHHHHHCCCCCChHHHHHHHHH
Q 009143          154 LTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVN-ELDKALHLFSTMANNGIRPNRVTHNILVHA  232 (542)
Q Consensus       154 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  232 (542)
                      .+++.+...+.+.+.+++|+++++++.+..|. +...|+....++...| ++++|+..++...+.. +-+..+|..+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            34555666677777888888888888887663 6777777777777765 4788888888877653 2356777777888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCC-
Q 009143          233 LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGD-  311 (542)
Q Consensus       233 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-  311 (542)
                      +.+.|++++|++.+.++++.++    .+..+|..+...+.+.|++++|++.++.+++.+ +.+...|+.+...+.+.+. 
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp----~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDA----KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             HHhhccHHHHHHHHhhhhhhhh----cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHcccc
Confidence            8888888888888888888776    777888888888888888888888888888775 5567777777666666554 


Q ss_pred             -----HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHhc------
Q 009143          312 -----ISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVA-PDQISYKTIIQGLCIH------  379 (542)
Q Consensus       312 -----~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~------  379 (542)
                           +++|++.+.++.+.. +.+...|..+...+. ....+++.+.++...+.... .+...+..+...|...      
T Consensus       197 ~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~  274 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCD  274 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             chhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHH
Confidence                 567777777777663 335556665555443 34456666777666553322 2334455555555432      


Q ss_pred             ---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009143          380 ---GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGY  411 (542)
Q Consensus       380 ---g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  411 (542)
                         ..+++|.+++..+...--+....-|+-+...+
T Consensus       275 ~~~~~~~ka~~l~~~l~~~~DpiR~~yw~~~~~~l  309 (315)
T d2h6fa1         275 NKEDILNKALELCEILAKEKDTIRKEYWRYIGRSL  309 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence               23567777777655432111223355555443

>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=99.30  E-value=2.7e-09  Score=99.38  Aligned_cols=300  Identities=14%  Similarity=0.051  Sum_probs=179.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----C-CCCHHHHHHH
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKAT-SDVITSTILMDSYFKNGDKFQALALWNDMFQKN----I-QTDIVAYNVL  302 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~-~~~~~~~~~l  302 (542)
                      ....+...|++++|.+++++.++..+.... ....++..+...+...|++++|...+++..+..    . .....++..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            344555666777777777666665441100 012355666667777777777777776665421    0 1112344555


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHc----CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC----CCChhhHHH
Q 009143          303 INGFCLNGDISSAFAYFCQMLKR----GFLPD---VITYNTLLNCLCKQGKLDEASHFYGVLSKTGV----APDQISYKT  371 (542)
Q Consensus       303 i~~~~~~~~~~~A~~~~~~~~~~----~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~  371 (542)
                      ...+...|++..+...+.+....    +....   ...+..+...+...|+++.+...+........    ......+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            66677777777777777665432    11111   22445556677777888888777776655321    112234444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC--CCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHH
Q 009143          372 IIQGLCIHGDIVKAREFLLSMLEKS--VVP----EPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSN---VFTFNAL  442 (542)
Q Consensus       372 li~~~~~~g~~~~A~~~~~~~~~~~--~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~l  442 (542)
                      ....+...++..++...+.+.....  ...    ....+..+...+...|++++|...++...+.....+   ...+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            5556666777777777766654321  111    123455566677788888888888877665322211   2233333


Q ss_pred             HHHhhcccccccCChHHHHHHHHHHHh----CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHc----CCCC----
Q 009143          443 ILAETRGASCNLGHIHLALQLYDEMLR----RGITPDI-ITYTELIKGHCARGNMKEAEEVFAKIQTL----GLAI----  509 (542)
Q Consensus       443 l~~~~~~~~~~~g~~~~A~~~~~~~~~----~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~~----  509 (542)
                      ...     +...|++++|...++++..    .+..|+. .++..+..+|...|++++|.+.+++..+.    |...    
T Consensus       258 a~~-----~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~  332 (366)
T d1hz4a_         258 ARA-----QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVI  332 (366)
T ss_dssp             HHH-----HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHT
T ss_pred             HHH-----HHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHH
Confidence            333     5667888888888887764    3444443 57788889999999999999999987652    3221    


Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHH
Q 009143          510 DHIPFRILKKRYRRMKESDKARDI  533 (542)
Q Consensus       510 ~~~~~~~l~~~~~~~g~~~~A~~~  533 (542)
                      ....+..++..+...+..+++.+-
T Consensus       333 ~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         333 EGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             THHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCChHHHHH
Confidence            233455667777888888877654

>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=99.27  E-value=2.2e-09  Score=99.94  Aligned_cols=273  Identities=15%  Similarity=0.070  Sum_probs=196.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCC----HH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTD----IVAYNVLINGFCLNGDISSAFAYFCQMLKRGF-LPD----VI  332 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~p~----~~  332 (542)
                      .........+...|++++|++++++..+.....+    ...+..+...+...|++++|+..|++..+... .++    ..
T Consensus        13 e~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   92 (366)
T d1hz4a_          13 EFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   92 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHH
Confidence            3455567778899999999999999987642212    34677788999999999999999998875321 111    24


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCCH
Q 009143          333 TYNTLLNCLCKQGKLDEASHFYGVLSKT----GVAPD---QISYKTIIQGLCIHGDIVKAREFLLSMLEKSV----VPEP  401 (542)
Q Consensus       333 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~~  401 (542)
                      .+..+...+...|++..+...+......    +....   ...+..+...+...|+++.+...+........    ....
T Consensus        93 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  172 (366)
T d1hz4a_          93 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  172 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHH
Confidence            5566777888999999999988876542    11111   23455667788899999999999988876422    2234


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCCH--HHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCC
Q 009143          402 HIWNVIIDGYGRCGDLSNAFSIRDLMLSF----GVSSNV--FTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPD  475 (542)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~--~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~  475 (542)
                      ..+......+...+++.++...+.+....    +..+..  ..+.....     .+...|++++|...+++........+
T Consensus       173 ~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~a~~~~~~~~~~~~~~~  247 (366)
T d1hz4a_         173 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVI-----YWQMTGDKAAAANWLRHTAKPEFANN  247 (366)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHH-----HHHHTTCHHHHHHHHHHSCCCCCTTC
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHH-----HHHhcccHHHHHHHHHHHHHhccccc
Confidence            56677778888999999999888776551    111111  11222222     25677999999999998876432222


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHhH----cCCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          476 ---IITYTELIKGHCARGNMKEAEEVFAKIQT----LGLAID-HIPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       476 ---~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                         ...+..+..++...|++++|...+++...    .+..|+ ...+..+...|.+.|++++|.+.++++++
T Consensus       248 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         248 HFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             GGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               34566788999999999999999998764    233333 45677888999999999999999999875

>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=99.19  E-value=5.4e-09  Score=95.36  Aligned_cols=186  Identities=10%  Similarity=0.003  Sum_probs=100.8

Q ss_pred             hhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHH
Q 009143          169 LEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGE  248 (542)
Q Consensus       169 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  248 (542)
                      .++|..+|++..+..++.+...|...+..+.+.|++++|..+|+++.+.........|...+....+.|+.+.|.++|++
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            45666666666654333455556666666666666666666666666542222233556666666666666666666666


Q ss_pred             HHhCCCCCCCCcHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-
Q 009143          249 VLADDDGKATSDVITSTILMDSY-FKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRG-  326 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-  326 (542)
                      +++..+    .+...|....... ...|+.+.|..+|+.+.... +.+...|...+....+.|+++.|..+|++..+.. 
T Consensus       160 al~~~~----~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         160 AREDAR----TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHTSTT----CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHhCC----CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            666554    3333333333322 23455666666666665542 3445556666666666666666666666655542 


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          327 FLPD--VITYNTLLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       327 ~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      ..|+  ...|...+..-...|+.+.+..+++++.+
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1221  22444444444445555555555554443

>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=99.17  E-value=4.3e-09  Score=96.06  Aligned_cols=189  Identities=9%  Similarity=-0.019  Sum_probs=155.7

Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHH
Q 009143          132 GKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLF  211 (542)
Q Consensus       132 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  211 (542)
                      +..++|..+|++.++...+.+...|...+..+.+.|+++.|..+|+++.+..+......|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            34578899999998764455667788889999999999999999999998766545668999999999999999999999


Q ss_pred             HHHHHCCCCCChHHHHHHHHH-HHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          212 STMANNGIRPNRVTHNILVHA-LCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       212 ~~m~~~g~~p~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +++.+.+ +.+...|...+.. +...|+.+.|.++|+.++...+    .+...|...++.+.+.|+.+.|..+|++....
T Consensus       158 ~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p----~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~  232 (308)
T d2onda1         158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG----DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhh----hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            9998764 3345555555443 3446899999999999999766    78899999999999999999999999999876


Q ss_pred             C-CCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          291 N-IQT--DIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       291 ~-~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      . ..|  ....|...+..-...|+.+.+.++++++.+.
T Consensus       233 ~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         233 GSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3 233  2457888888888889999999999988765

>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=99.12  E-value=1.6e-09  Score=96.30  Aligned_cols=197  Identities=12%  Similarity=-0.066  Sum_probs=115.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 009143          224 VTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLI  303 (542)
Q Consensus       224 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  303 (542)
                      .+|..+...|.+.|++++|.+.|++.++..+    .+..+|+.+..++.+.|++++|++.|+++.+.. +.+..++..+.
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p----~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg  112 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRP----DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRG  112 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCC----CCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHH
Confidence            3555666777777777777777777777666    667777777777777777777777777777664 44556677777


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC--
Q 009143          304 NGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGD--  381 (542)
Q Consensus       304 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--  381 (542)
                      .++...|++++|.+.|++..+.. +.+......+..++.+.+..+.+..+........  ++...+. ++..+.....  
T Consensus       113 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~  188 (259)
T d1xnfa_         113 IALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQ  188 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHH
Confidence            77777777777777777777653 2233333334444445555454544444444432  2222222 2222221111  


Q ss_pred             --HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009143          382 --IVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSF  430 (542)
Q Consensus       382 --~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (542)
                        .+.+...+........ -...+|..+...|...|++++|.+.|+..+..
T Consensus       189 ~~~~~~~~~~~~~~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         189 TLMERLKADATDNTSLAE-HLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHHHHHHHCCSHHHHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhhcCc-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence              1222222111111100 02345667788888888888888888888774

>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=99.10  E-value=5.4e-10  Score=103.62  Aligned_cols=219  Identities=7%  Similarity=-0.060  Sum_probs=108.7

Q ss_pred             hhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC--hhHHHHHHHHHHhCCCCCCCCcHHHHH-HHHHHHHhcCCHHHH
Q 009143          204 LDKALHLFSTMANNGIRPNRVTHNILVHALCKKGL--LGDAVKFLGEVLADDDGKATSDVITST-ILMDSYFKNGDKFQA  280 (542)
Q Consensus       204 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a  280 (542)
                      +++|+.+++...+.. +-+...|..+..++...++  .++|...+.++++..+    .+...+. .....+...+..++|
T Consensus        89 ~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~----~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE----RNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc----hhhhhhhhHHHHHHHhccccHHH
Confidence            444555555544432 1133344444444443332  4455555555555443    3333332 223444445555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          281 LALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      +..++.+.+.+ +-+...|+.+...+.+.|++++|...+....+.  .|+   .......+...+..+++...+......
T Consensus       164 l~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         164 LAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHh
Confidence            55555555443 344555555555555555554443333322221  111   111222334445555566555555554


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 009143          361 GVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVF  437 (542)
Q Consensus       361 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  437 (542)
                      . +++...+..+...+...|+..+|...+.+....++. +...|..++.++...|++++|.+.++...+  +.|+..
T Consensus       238 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~  310 (334)
T d1dcea1         238 R-AEPLFRCELSVEKSTVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRA  310 (334)
T ss_dssp             C-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGH
T ss_pred             C-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccH
Confidence            2 233444555555566666777777777766655433 455666666777777777777777777766  345433

>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=99.10  E-value=7.6e-09  Score=91.70  Aligned_cols=200  Identities=13%  Similarity=-0.045  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 009143          298 AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC  377 (542)
Q Consensus       298 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  377 (542)
                      +|..+...|.+.|++++|++.|++..+.. +-++.+|..+..++.+.|++++|...|+++.+.. +.+..++..+...|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            34444444555555555555555554432 2234445555555555555555555555554432 112334444455555


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCCh
Q 009143          378 IHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHI  457 (542)
Q Consensus       378 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~  457 (542)
                      ..|++++|.+.+++.++..+. +......+..++.+.+..+.+..+..........+.  .+... ..+. ......+..
T Consensus       117 ~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~-~~~~-~~~~~~~~~  191 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQW--GWNIV-EFYL-GNISEQTLM  191 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCST--HHHHH-HHHT-TSSCHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhh--hhhHH-HHHH-HHHHHHHHH
Confidence            555555555555555544322 333333333333344443333333333333211111  11111 1000 001111112


Q ss_pred             HHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHcC
Q 009143          458 HLALQLYDEMLRRGITPD-IITYTELIKGHCARGNMKEAEEVFAKIQTLG  506 (542)
Q Consensus       458 ~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  506 (542)
                      +.+...+......  .|+ ..+|..+...|...|++++|...|++.....
T Consensus       192 ~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         192 ERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            2222222211111  122 2456678888888999999999999888753

>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=99.09  E-value=3.3e-10  Score=105.06  Aligned_cols=273  Identities=8%  Similarity=-0.048  Sum_probs=195.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHH----------HHHcCChhHHHHHHHHHhhCCCCCCHHhHH
Q 009143          124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDV-LTHNYLVNE----------LCKIGDLEKADHVIREMSEMRPSPNCATYN  192 (542)
Q Consensus       124 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~----------~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  192 (542)
                      ++...-..+..++|+.++++.++.  .|+. ..|+..-..          +...|++++|...++...+..|+ +...|.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            333333334458999999999875  3443 345443333          23345578999999999887763 778888


Q ss_pred             HHHHHHHHcCC--hhhHHHHHHHHHHCCCCCChHHHH-HHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHH
Q 009143          193 AFITGYCRVNE--LDKALHLFSTMANNGIRPNRVTHN-ILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMD  269 (542)
Q Consensus       193 ~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~  269 (542)
                      .+..++...++  +++|...++++.+.. +++...+. .....+...+..++|...++.++..++    .+..+|+.+..
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p----~~~~a~~~l~~  186 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF----SNYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC----CCHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC----CCHHHHHHHHH
Confidence            88877777654  789999999998763 33455544 445677778999999999999999887    88999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 009143          270 SYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDE  349 (542)
Q Consensus       270 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  349 (542)
                      .+.+.|++++|...++...+..  |+.   ......+...+..+++...+....... +++...+..+...+...++.++
T Consensus       187 ~~~~~~~~~~A~~~~~~~~~~~--~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~  260 (334)
T d1dcea1         187 LLPQLHPQPDSGPQGRLPENVL--LKE---LELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELE  260 (334)
T ss_dssp             HHHHHSCCCCSSSCCSSCHHHH--HHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHhHHhH--HHH---HHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHH
Confidence            9999999988866665544321  111   122334455677777888888877764 4455666677778888899999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 009143          350 ASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYG  412 (542)
Q Consensus       350 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  412 (542)
                      |...+.+..+.. +.+..++..+...+...|+.++|.+.++++.+.++. +..-|+.+...+.
T Consensus       261 a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~-~~~y~~~L~~~~~  321 (334)
T d1dcea1         261 SCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM-RAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHh
Confidence            999998887653 224567788888899999999999999999987542 4456666655554

>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=98.72  E-value=5.3e-07  Score=75.17  Aligned_cols=124  Identities=9%  Similarity=-0.051  Sum_probs=81.6

Q ss_pred             HHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc
Q 009143          195 ITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN  274 (542)
Q Consensus       195 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  274 (542)
                      ...+...|++++|++.|+++    .+|+..++..+..++...|++++|++.|++.++.++    .+...|..+..++.+.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp----~~~~a~~~~g~~~~~~   83 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK----HLAVAYFQRGMLYYQT   83 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh----hhhhhHHHHHHHHHhh
Confidence            34455667777777776653    245666666677777777777777777777777665    6667777777777777


Q ss_pred             CCHHHHHHHHHHHHHCCC--------------CC-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Q 009143          275 GDKFQALALWNDMFQKNI--------------QT-DIVAYNVLINGFCLNGDISSAFAYFCQMLKRG  326 (542)
Q Consensus       275 g~~~~a~~~~~~~~~~~~--------------~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  326 (542)
                      |++++|.+.|++......              .. ...++..+..++.+.|++++|.+.+....+..
T Consensus        84 g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          84 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777777777776654210              00 12445566677777888888888777776653

>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=98.64  E-value=1.4e-06  Score=72.45  Aligned_cols=126  Identities=12%  Similarity=-0.110  Sum_probs=68.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 009143          268 MDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKL  347 (542)
Q Consensus       268 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  347 (542)
                      ...+...|+++.|++.|+++.    +|++.+|..+..+|...|++++|++.|++..+.. +.+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            444455566666665555432    4455555556666666666666666666655543 23445555555566666666


Q ss_pred             HHHHHHHHHHHHCCCC--------------CC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 009143          348 DEASHFYGVLSKTGVA--------------PD-QISYKTIIQGLCIHGDIVKAREFLLSMLEKSVV  398 (542)
Q Consensus       348 ~~A~~~~~~~~~~~~~--------------~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  398 (542)
                      ++|...|++.......              ++ ..++..+..++.+.|++++|.+.+....+..+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            6666655555432100              00 123344555666677777777777766665443

>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=98.58  E-value=1.2e-06  Score=66.21  Aligned_cols=92  Identities=15%  Similarity=0.062  Sum_probs=60.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL  308 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  308 (542)
                      -...+.+.|++++|+..|.++++..+    .+...|..+..++.+.|++++|+..++...+.+ +.++..|..+..++..
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p----~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~   83 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDP----HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   83 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC----cchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHH
Confidence            34555666666666666666666655    566666666666666666666666666666654 4566666666666666


Q ss_pred             CCCHHHHHHHHHHHHHc
Q 009143          309 NGDISSAFAYFCQMLKR  325 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~  325 (542)
                      .|++++|+..|++..+.
T Consensus        84 ~~~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          84 LNRFEEAKRTYEEGLKH  100 (117)
T ss_dssp             TTCHHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHh
Confidence            66666666666666654

>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=98.56  E-value=1.5e-06  Score=77.85  Aligned_cols=131  Identities=15%  Similarity=-0.002  Sum_probs=63.6

Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHC----CCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCCCcHHHHHH
Q 009143          194 FITGYCRVNELDKALHLFSTMANN----GIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLADDDG--KATSDVITSTI  266 (542)
Q Consensus       194 li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~  266 (542)
                      ....|...|++++|.+.|.+..+.    +-+++ ..+|..+..+|.+.|++++|.+.+++.+.....  .......++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            345566667777777777666442    11111 245566666666666666666666655442110  00011233444


Q ss_pred             HHHHHHh-cCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          267 LMDSYFK-NGDKFQALALWNDMFQK----NIQT-DIVAYNVLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       267 l~~~~~~-~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      +...|.. .|++++|.+.+++..+.    +.++ ...++..+...+...|++++|++.|+++..
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            4444433 35555555555554321    1001 122344455555555555555555555444

>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=98.56  E-value=0.00019  Score=62.65  Aligned_cols=224  Identities=15%  Similarity=0.022  Sum_probs=131.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHH----cCChhHHHHHHHHHhhCCCCCCHHhHH
Q 009143          117 DYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCK----IGDLEKADHVIREMSEMRPSPNCATYN  192 (542)
Q Consensus       117 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  192 (542)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...++.....+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45566777777778888888888888888765   55666667777766    457777877777776644   333444


Q ss_pred             HHHHHHHH----cCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCCCcHHHH
Q 009143          193 AFITGYCR----VNELDKALHLFSTMANNGIRPNRVTHNILVHALCK----KGLLGDAVKFLGEVLADDDGKATSDVITS  264 (542)
Q Consensus       193 ~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  264 (542)
                      .+...+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......      .+...+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~  145 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL------NDGDGC  145 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT------TCHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc------cccchh
Confidence            44444433    3566777777777776652   2222333333332    33445555666555443      334555


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 009143          265 TILMDSYFK----NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL----NGDISSAFAYFCQMLKRGFLPDVITYNT  336 (542)
Q Consensus       265 ~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~  336 (542)
                      ..|...+..    ..+...+...++...+.|   +..+...+...+..    ..++++|+..|.+..+.|   ++..+..
T Consensus       146 ~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~  219 (265)
T d1ouva_         146 TILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFN  219 (265)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             hhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHH
Confidence            666666654    345566666666666543   45555555555544    446666777776666654   3444444


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHCC
Q 009143          337 LLNCLCK----QGKLDEASHFYGVLSKTG  361 (542)
Q Consensus       337 li~~~~~----~g~~~~A~~~~~~~~~~~  361 (542)
                      |...|.+    ..+.++|.+.|+.....|
T Consensus       220 LG~~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         220 LGAMQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            5555443    225566666666655544

>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=98.56  E-value=1.3e-06  Score=66.11  Aligned_cols=92  Identities=16%  Similarity=0.131  Sum_probs=42.5

Q ss_pred             HHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChh
Q 009143          161 NELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLG  240 (542)
Q Consensus       161 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  240 (542)
                      ..+.+.|++++|+..|++..+..| .+...|..+..++...|++++|+..+++..+.+ +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC-cchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            334444444555444444444433 234444444444444444444444444444432 223444444444444444444


Q ss_pred             HHHHHHHHHHhCCC
Q 009143          241 DAVKFLGEVLADDD  254 (542)
Q Consensus       241 ~a~~~~~~~~~~~~  254 (542)
                      +|+..+++.++..+
T Consensus        89 ~A~~~~~~a~~~~p  102 (117)
T d1elwa_          89 EAKRTYEEGLKHEA  102 (117)
T ss_dssp             HHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhCC
Confidence            44444444444443

>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=98.56  E-value=1.5e-06  Score=77.95  Aligned_cols=133  Identities=9%  Similarity=-0.090  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCC-----CCHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQK----GTVP-DVLTHNYLVNELCKIGDLEKADHVIREMSEMRPS-----PNCA  189 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~  189 (542)
                      .|......|...|++++|...|.+..+.    +..+ -..+|..+..+|.+.|++++|.+.+++..+....     ....
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            3555666666666777776666665542    1111 1234555666666666666666666654432111     0123


Q ss_pred             hHHHHHHHHHH-cCChhhHHHHHHHHHHC----CCCCC-hHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 009143          190 TYNAFITGYCR-VNELDKALHLFSTMANN----GIRPN-RVTHNILVHALCKKGLLGDAVKFLGEVLAD  252 (542)
Q Consensus       190 ~~~~li~~~~~-~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  252 (542)
                      ++..+...|.. .|++++|++.+++..+.    +.++. ..++..+...+...|++++|.+.++++...
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence            33444444433 35666666655554321    11111 223444555555555555555555555544

>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=98.51  E-value=2.3e-06  Score=68.76  Aligned_cols=92  Identities=15%  Similarity=0.087  Sum_probs=64.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL  308 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  308 (542)
                      ....|.+.|++++|...|.++++.++    .+...|..+..+|...|++++|...|++.++.. +.+..+|..++.++..
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNP----SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccch----hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            44556677777777777777777665    667777777777777777777777777776654 4566677777777777


Q ss_pred             CCCHHHHHHHHHHHHHc
Q 009143          309 NGDISSAFAYFCQMLKR  325 (542)
Q Consensus       309 ~~~~~~A~~~~~~~~~~  325 (542)
                      .|++++|...+++....
T Consensus        91 ~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          91 LGKFRAALRDYETVVKV  107 (159)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHc
Confidence            77777777777777665

>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=98.49  E-value=0.00029  Score=61.37  Aligned_cols=229  Identities=15%  Similarity=0.032  Sum_probs=125.8

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 009143          260 DVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCL----NGDISSAFAYFCQMLKRGFLPDVITYN  335 (542)
Q Consensus       260 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~  335 (542)
                      |+..+..|...+...+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            34566777777778888888888888887765   55566666666665    557777777777777654   333333


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 009143          336 TLLNCLCK----QGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI----HGDIVKAREFLLSMLEKSVVPEPHIWNVI  407 (542)
Q Consensus       336 ~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  407 (542)
                      .+...+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            44433332    3466777777777666542   2222233333332    33456666666665554   355566666


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          408 IDGYGR----CGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELI  483 (542)
Q Consensus       408 i~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li  483 (542)
                      ...|..    ..+...+...++...+.|. ++.......+..   .+.....+.++|..+|++..+.|   ++..+..|.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g~-~~A~~~lg~~y~---~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG  221 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLKD-SPGCFNAGNMYH---HGEGATKNFKEALARYSKACELE---NGGGCFNLG  221 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHH---HTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhccccccc-cccccchhhhcc---cCcccccchhhhhhhHhhhhccc---CHHHHHHHH
Confidence            666654    3445556666666555431 111111111111   01222445666666666666654   233444455


Q ss_pred             HHHHh----cCCHHHHHHHHHHHhHcCC
Q 009143          484 KGHCA----RGNMKEAEEVFAKIQTLGL  507 (542)
Q Consensus       484 ~~~~~----~g~~~~A~~~~~~m~~~g~  507 (542)
                      ..|.+    ..++++|.++|++..+.|.
T Consensus       222 ~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         222 AMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            55543    2356666666666665553

>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=98.49  E-value=1.1e-06  Score=73.87  Aligned_cols=99  Identities=15%  Similarity=0.018  Sum_probs=55.6

Q ss_pred             CChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 009143          221 PNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYN  300 (542)
Q Consensus       221 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  300 (542)
                      |+...+......+.+.|++++|+..|.+++...|    .+..+|..+..+|.+.|++++|+..|+..++.. +-+..+|.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p----~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~   76 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP----LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHF   76 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHH
Confidence            4444555555555556666666666655555554    455555555555666666666666665555443 33455555


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHH
Q 009143          301 VLINGFCLNGDISSAFAYFCQMLK  324 (542)
Q Consensus       301 ~li~~~~~~~~~~~A~~~~~~~~~  324 (542)
                      .+..+|...|++++|+..|+++.+
T Consensus        77 ~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          77 FLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555556666666555555543

>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=98.46  E-value=2.4e-06  Score=68.66  Aligned_cols=93  Identities=17%  Similarity=0.093  Sum_probs=53.6

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCh
Q 009143          160 VNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLL  239 (542)
Q Consensus       160 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  239 (542)
                      ...|.+.|++++|...|++..+..| .+...|..+..+|...|++++|.+.|++..+.. +-+..+|..++.++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            3445566666666666666665554 255556666666666666666666666665542 22345555566666666666


Q ss_pred             hHHHHHHHHHHhCCC
Q 009143          240 GDAVKFLGEVLADDD  254 (542)
Q Consensus       240 ~~a~~~~~~~~~~~~  254 (542)
                      ++|.+.+++.+...+
T Consensus        95 ~eA~~~~~~a~~~~p  109 (159)
T d1a17a_          95 RAALRDYETVVKVKP  109 (159)
T ss_dssp             HHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCC
Confidence            666666666665544

>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=98.37  E-value=3.2e-06  Score=70.95  Aligned_cols=99  Identities=11%  Similarity=-0.023  Sum_probs=54.5

Q ss_pred             CCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHH
Q 009143          186 PNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITST  265 (542)
Q Consensus       186 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  265 (542)
                      |+...+......+.+.|++++|+..|++..... +-+...|..+..+|.+.|++++|+..++++++..+    .+..+|.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p----~~~~a~~   76 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG----QSVKAHF   76 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT----TCHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC----CcHHHHH
Confidence            344444445555555555555555555554432 22445555555555555666666666655555544    4555566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 009143          266 ILMDSYFKNGDKFQALALWNDMFQ  289 (542)
Q Consensus       266 ~l~~~~~~~g~~~~a~~~~~~~~~  289 (542)
                      .+..+|.+.|++++|+..|++..+
T Consensus        77 ~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          77 FLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666666666666666666655543

>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=98.32  E-value=2.7e-06  Score=63.65  Aligned_cols=85  Identities=16%  Similarity=0.088  Sum_probs=35.9

Q ss_pred             HHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC
Q 009143          197 GYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD  276 (542)
Q Consensus       197 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  276 (542)
                      .+.+.|++++|+..|++..... +-+..+|..+..++.+.|++++|+..++++++..+    .+..++..+...|...|+
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p----~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP----KDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc----ccccchHHHHHHHHHCCC
Confidence            3344444444444444444332 11234444444444444444444444444444333    334444444444444444


Q ss_pred             HHHHHHHHHH
Q 009143          277 KFQALALWND  286 (542)
Q Consensus       277 ~~~a~~~~~~  286 (542)
                      +++|.+.+++
T Consensus       100 ~~~A~~~l~~  109 (112)
T d1hxia_         100 ANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=98.22  E-value=4.1e-06  Score=62.54  Aligned_cols=88  Identities=15%  Similarity=0.010  Sum_probs=47.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                      ...+.+.|++++|...+++++...+    .+..+|..+..++.+.|++++|+..+++..+.. +.+..+|..+...|...
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p----~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEP----EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhccccc----ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            3444555555555555555555544    445555555555555555555555555555543 34455555555555555


Q ss_pred             CCHHHHHHHHHHH
Q 009143          310 GDISSAFAYFCQM  322 (542)
Q Consensus       310 ~~~~~A~~~~~~~  322 (542)
                      |++++|++.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            5555555555543

>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=98.21  E-value=0.0017  Score=57.81  Aligned_cols=264  Identities=12%  Similarity=0.072  Sum_probs=151.9

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009143          116 TDYRRHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFI  195 (542)
Q Consensus       116 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  195 (542)
                      ||..--..+...|.+.|.++.|..+|..+.         -|..++..+.+.+++..|.+++.+.      .+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            455555667777889999999999997553         3667888888999999998887765      3567888888


Q ss_pred             HHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          196 TGYCRVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       196 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      ..+.+.....-|     .+...+...++.....++..|-..|.+++...+++.......    .+...++.++..|++.+
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~----~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLER----AHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTT----CCHHHHHHHHHHHHTTC
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCc----cchHHHHHHHHHHHHhC
Confidence            888887766543     222333445666777889999999999999999998876544    67778889999888864


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHH----------HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009143          276 DKFQALALWNDMFQKNIQTDIV----------AYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQG  345 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~----------~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  345 (542)
                       .++..+.+.....   .-|..          .|.-++..|.+.|+++.|..+.   .+.  .++..-....+..+.+..
T Consensus       148 -~~kl~e~l~~~s~---~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~  218 (336)
T d1b89a_         148 -PQKMREHLELFWS---RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVA  218 (336)
T ss_dssp             -HHHHHHHHHHHST---TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCS
T ss_pred             -hHHHHHHHHhccc---cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccC
Confidence             3343333333211   11211          1233444444444444443332   222  334444455566667777


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH-------------HHHhCCCCCCHHHHHHHHHHHH
Q 009143          346 KLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLL-------------SMLEKSVVPEPHIWNVIIDGYG  412 (542)
Q Consensus       346 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~-------------~~~~~~~~~~~~~~~~li~~~~  412 (542)
                      +++...++.....+.  .  +...+.++......-+..+..+.++             ...+.+   +....+++...|.
T Consensus       219 N~e~~~~~i~~yL~~--~--p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyi  291 (336)
T d1b89a_         219 NVELYYRAIQFYLEF--K--PLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFI  291 (336)
T ss_dssp             STHHHHHHHHHHHHH--C--GGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHc--C--HHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHh
Confidence            777666666555542  2  2334455555444445544444443             333322   3456677777777


Q ss_pred             hcCChHH
Q 009143          413 RCGDLSN  419 (542)
Q Consensus       413 ~~g~~~~  419 (542)
                      ..++++.
T Consensus       292 e~~d~~~  298 (336)
T d1b89a_         292 TEEDYQA  298 (336)
T ss_dssp             HTTCHHH
T ss_pred             CcchhHH
Confidence            7777544

>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=98.19  E-value=6.6e-06  Score=62.24  Aligned_cols=93  Identities=13%  Similarity=0.026  Sum_probs=48.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHH
Q 009143          229 LVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGD---KFQALALWNDMFQKNIQTD-IVAYNVLIN  304 (542)
Q Consensus       229 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~  304 (542)
                      +++.+...+++++|++.|++.+..++    .+..++..+..++.+.++   .++|+.+++++...+..|+ ..+|..+..
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p----~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGS----VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSC----CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCC----CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            44455555555556666655555554    555555555555554333   2345555555554432222 124555555


Q ss_pred             HHHhCCCHHHHHHHHHHHHHc
Q 009143          305 GFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       305 ~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +|.+.|++++|++.|+++.+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            555566666666666555554

>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=98.19  E-value=6.3e-06  Score=62.38  Aligned_cols=92  Identities=14%  Similarity=0.024  Sum_probs=37.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCh---hHHHHHHHHHhhCCCCCC-HHhHHHHHHHHH
Q 009143          124 VIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDL---EKADHVIREMSEMRPSPN-CATYNAFITGYC  199 (542)
Q Consensus       124 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~  199 (542)
                      +++.+...+++++|.+.|++.+..+ +.++.++..+..++.+.++.   ++|+++|+++....+.|+ ..+|..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            3444444444444444444444432 22334444444444432222   234444444443332222 123334444444


Q ss_pred             HcCChhhHHHHHHHHHH
Q 009143          200 RVNELDKALHLFSTMAN  216 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~  216 (542)
                      +.|++++|++.|+++.+
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            44444444444444443

>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=98.12  E-value=5.2e-05  Score=61.22  Aligned_cols=62  Identities=16%  Similarity=0.035  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +|..+..+|.+.|++++|+..++.++..+|    .++.++..++.++...|++++|...|+...+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p----~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDS----NNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccc----cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            344455555556666666666666555554    45555555555555556666666555555554

>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=98.11  E-value=4.7e-05  Score=61.48  Aligned_cols=130  Identities=11%  Similarity=-0.092  Sum_probs=83.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      .+......+.+.|++++|+..|.+.++.-  |....            ..+.-......+       ...+|+.+..+|.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~~------------~~~~~~~~~~~~-------~~~~~~nla~~y~   73 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESS------------FSNEEAQKAQAL-------RLASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCC------------CCSHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhccc------------cchHHHhhhchh-------HHHHHHHHHHHHH
Confidence            34455566777778888887777776541  11000            000000111111       1235667788888


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcC
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNG  275 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  275 (542)
                      +.|++++|+..++...... +.++.++..+..++...|++++|...|+++++.+|    .+..+...+....-+.+
T Consensus        74 k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P----~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP----NNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----SCHHHHHHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHHH
Confidence            8888888888888888763 33677888888888888888888888888888776    56666655555544433

>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=98.06  E-value=3.3e-05  Score=59.05  Aligned_cols=94  Identities=19%  Similarity=0.220  Sum_probs=52.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----HHHHHH
Q 009143          228 ILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNI--QTD----IVAYNV  301 (542)
Q Consensus       228 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~~~  301 (542)
                      .+...+.+.|++++|++.|.+.++.++    .+..++..+..+|.+.|++++|+..++++++...  ...    ..+|..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p----~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDP----TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCc----ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            345555566666666666666666554    5555666666666666666666666666554210  000    124455


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          302 LINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       302 li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +...+...+++++|++.|.+....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc
Confidence            555556666666666666655543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.99  E-value=0.00011  Score=59.62  Aligned_cols=71  Identities=14%  Similarity=0.161  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 009143          262 ITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLK-----RGFLPDVIT  333 (542)
Q Consensus       262 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~p~~~~  333 (542)
                      ..+..+...+.+.|++++|+..++.+.+.. +.+...|..++.++...|+..+|++.|+++.+     .|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            455666666666666666666666666654 55666666666666666666666666666532     356665443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.96  E-value=2.7e-06  Score=82.50  Aligned_cols=132  Identities=14%  Similarity=-0.001  Sum_probs=54.6

Q ss_pred             CChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHH
Q 009143          237 GLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAF  316 (542)
Q Consensus       237 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  316 (542)
                      +.++.++..+.......+    .+...+..+...+.+.|+.++|...+.......   ...++..+...+...|++++|.
T Consensus       100 ~~Y~~ai~~l~~~~~l~~----~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~  172 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVDL----PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAE  172 (497)
T ss_dssp             HHHHHHHHHHTC-----------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCh----hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHH
Confidence            334444444443333333    444555566666666666666665555544321   1234555666666666666666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 009143          317 AYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLC  377 (542)
Q Consensus       317 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  377 (542)
                      ..|.+..+.. +-+...|+.+...+...|+..+|...|.+..... +|-..++..|...+.
T Consensus       173 ~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         173 SYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            6666666552 2234566666666666666666666666665543 344555555555544

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.96  E-value=0.0002  Score=56.43  Aligned_cols=62  Identities=16%  Similarity=-0.045  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          225 THNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       225 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +|..+..+|.+.|++++|++.+.++++.+|    .++.+|..++.++...|++++|...|+...+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p----~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDK----NNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccc----hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344455555555555555555555555544    45555555555555555555555555555544

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.91  E-value=9.3e-05  Score=59.65  Aligned_cols=61  Identities=18%  Similarity=-0.098  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      +..+..++.+.|++++|+..+.++++..+    .+..+|..+..++...|++++|+..|+...+.
T Consensus        80 ~~nla~~~~~~~~~~~Ai~~~~~al~~~p----~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          80 VLNIGACKLKMSDWQGAVDSCLEALEIDP----SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhhhhh----hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34444444455555555555555554444    44444555555555555555555555544444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.88  E-value=0.00011  Score=55.97  Aligned_cols=96  Identities=18%  Similarity=0.192  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CC-----HHHHHH
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFL-PD-----VITYNT  336 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~-p~-----~~~~~~  336 (542)
                      .+-.+...+.+.|++++|+..|++.++.+ +.+...|..+..+|.+.|++++|++.++++.+.... +.     ..+|..
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            44566777888888888888888887775 556777888888888888888888888877654210 11     134555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 009143          337 LLNCLCKQGKLDEASHFYGVLSK  359 (542)
Q Consensus       337 li~~~~~~g~~~~A~~~~~~~~~  359 (542)
                      +...+...+++++|...|.....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            66666777777777777766655

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.87  E-value=0.00012  Score=58.87  Aligned_cols=72  Identities=13%  Similarity=-0.023  Sum_probs=38.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 009143          226 HNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVL  302 (542)
Q Consensus       226 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  302 (542)
                      |..+..+|.+.|++++|+..+++++..++    .+..+|..+..++...|++++|...|+++.+.. |.+..+...+
T Consensus        67 ~~Nla~~~~~l~~~~~Ai~~~~~al~l~p----~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l  138 (168)
T d1kt1a1          67 FLNLAMCYLKLREYTKAVECCDKALGLDS----ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQI  138 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHH
T ss_pred             HHhHHHHHHHhhhcccchhhhhhhhhccc----chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            34445555555555555555555555544    455555555555555555555555555555543 3333333333

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.87  E-value=0.00016  Score=58.16  Aligned_cols=66  Identities=11%  Similarity=-0.019  Sum_probs=47.3

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          259 SDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       259 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .....+..+..++.+.|++++|+..+++.++.. +.++.+|..+..++...|++++|++.|+++.+.
T Consensus        75 ~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          75 VALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344566667777777777777777777777665 556677777777777777777777777777765

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.86  E-value=0.00031  Score=55.32  Aligned_cols=124  Identities=11%  Similarity=-0.039  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHH
Q 009143          120 RHVAVIRDLCLGGKIGTALWLRRKMIQKGTVPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYC  199 (542)
Q Consensus       120 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  199 (542)
                      .+..-...+.+.|++.+|+..|.+.+..-  |....            ..+....  ....    .....+|+.+..+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~~------------~~~~~~~--~~~~----~~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEE------------WDDQILL--DKKK----NIEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTT------------CCCHHHH--HHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchhh------------hhhHHHH--Hhhh----hHHHHHHhhHHHHHH
Confidence            45556677788888888888888877641  11000            0000000  0000    012346667778888


Q ss_pred             HcCChhhHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHH
Q 009143          200 RVNELDKALHLFSTMANNGIRPNRVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILM  268 (542)
Q Consensus       200 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~  268 (542)
                      +.|++++|++.+++..+.. +.+..+|..+..++...|++++|...|++.++.+|    .+..+...+-
T Consensus        79 ~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P----~n~~~~~~l~  142 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP----NNLDIRNSYE  142 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST----TCHHHHHHHH
T ss_pred             Hhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHH
Confidence            8888888888888887753 34677888888888888888888888888888776    5555554443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.82  E-value=0.0093  Score=52.92  Aligned_cols=283  Identities=8%  Similarity=-0.000  Sum_probs=158.9

Q ss_pred             CCChhhHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHHCCCCCChHHHHHH
Q 009143          150 VPDVLTHNYLVNELCKIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMANNGIRPNRVTHNIL  229 (542)
Q Consensus       150 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  229 (542)
                      .||..-...+++.|.+.|.++.|..++..+.         -|..++..+.+.++++.|.+++.+.      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            3565556677888889999999999987652         2567788888999999998887654      266788888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhC
Q 009143          230 VHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLN  309 (542)
Q Consensus       230 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  309 (542)
                      ...+.+......+.     +..... .  .+......++..|-..|.+++...+++...... ..+...++.++..|++.
T Consensus        76 ~~~l~~~~e~~la~-----i~~~~~-~--~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          76 CFACVDGKEFRLAQ-----MCGLHI-V--VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHTTCHHHHH-----HTTTTT-T--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHhCcHHHHHH-----HHHHHh-h--cCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            88888877665432     111111 2  455556678899999999999999999877543 56778888999988886


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH----------HHCCCCCChhhHHHHHHHHHhc
Q 009143          310 GDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVL----------SKTGVAPDQISYKTIIQGLCIH  379 (542)
Q Consensus       310 ~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----------~~~~~~~~~~~~~~li~~~~~~  379 (542)
                      + .++..+.+.....   .-|   ...++..|.+.+-++++.-++..+          .+  .+++..-....+..+.+.
T Consensus       147 ~-~~kl~e~l~~~s~---~y~---~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~--~~~~~~~~~~f~e~~~k~  217 (336)
T d1b89a_         147 K-PQKMREHLELFWS---RVN---IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN--HPTDAWKEGQFKDIITKV  217 (336)
T ss_dssp             C-HHHHHHHHHHHST---TSC---HHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH--STTTTCCHHHHHHHHHHC
T ss_pred             C-hHHHHHHHHhccc---cCC---HHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH--cchhhhhHHHHHHHHHcc
Confidence            5 3444444433211   111   222333444444444433333222          12  123333344445555555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHH
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHL  459 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~  459 (542)
                      .+.+...+++...++.    ++...+.++......-+..+..+.++                           +.+++..
T Consensus       218 ~N~e~~~~~i~~yL~~----~p~~i~~lL~~v~~~~d~~r~V~~~~---------------------------k~~~l~l  266 (336)
T d1b89a_         218 ANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFS---------------------------KVKQLPL  266 (336)
T ss_dssp             SSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHHHHHHH---------------------------HTTCTTT
T ss_pred             CChHHHHHHHHHHHHc----CHHHHHHHHHHhccCCCHHHHHHHHH---------------------------hcCCcHH
Confidence            5555544444444432    22334445544444444444444332                           2355555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 009143          460 ALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVF  499 (542)
Q Consensus       460 A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  499 (542)
                      ...+++...+.|   +....+++...|...++++.-...+
T Consensus       267 i~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         267 VKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             THHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            666676655544   3467888999999998876544433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.82  E-value=0.00065  Score=54.34  Aligned_cols=62  Identities=15%  Similarity=0.053  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          263 TSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       263 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      +|+.+..+|.+.|++++|+..++..+... +.+..+|..+..++...|++++|...|.++.+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44455555666666666666666655544 445555666666666666666666666665554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.76  E-value=0.00031  Score=56.80  Aligned_cols=72  Identities=14%  Similarity=0.102  Sum_probs=62.0

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHH
Q 009143          223 RVTHNILVHALCKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQ-----KNIQTDIV  297 (542)
Q Consensus       223 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~  297 (542)
                      ...+..+...+.+.|++++|...+++++..++    .+...|..++.++.+.|+..+|++.|+++..     .|+.|...
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P----~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEHP----YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            35667788889999999999999999999887    8899999999999999999999999998744     48888875


Q ss_pred             H
Q 009143          298 A  298 (542)
Q Consensus       298 ~  298 (542)
                      +
T Consensus       143 l  143 (179)
T d2ff4a2         143 L  143 (179)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=2.8e-05  Score=75.14  Aligned_cols=136  Identities=11%  Similarity=-0.022  Sum_probs=81.7

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 009143          274 NGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHF  353 (542)
Q Consensus       274 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  353 (542)
                      .+.++.++..+....+.. +++...+..+...+.+.|+.++|...+.......  | ...+..+...+...|++++|...
T Consensus        99 ~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHHTC--------------------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHH
Confidence            344555555554444332 4556677888888899999999998887766532  2 35677888999999999999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009143          354 YGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCG  415 (542)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  415 (542)
                      |.+..+.. +.+...|+.+...+...|+..+|...|.+.+.... |-+.++..|...+.+..
T Consensus       175 y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         175 YRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHHhh
Confidence            99998864 34567999999999999999999999999998764 57888888888776543

>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=97.67  E-value=0.00012  Score=57.20  Aligned_cols=91  Identities=13%  Similarity=0.077  Sum_probs=40.4

Q ss_pred             ChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 009143          238 LLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKN----------GDKFQALALWNDMFQKNIQTDIVAYNVLINGFC  307 (542)
Q Consensus       238 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  307 (542)
                      .+++|++.++.+++..|    .+..++..+..++...          +.+++|+..|++.++.+ |.+..+|..+..+|.
T Consensus        12 ~fe~A~~~~e~al~~~P----~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1          12 LFEQIRQDAENTYKSNP----LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhCC----cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            34444444444444444    4444444444444322          22334444444444443 334444444444443


Q ss_pred             hCC-----------CHHHHHHHHHHHHHcCCCCCHHHHH
Q 009143          308 LNG-----------DISSAFAYFCQMLKRGFLPDVITYN  335 (542)
Q Consensus       308 ~~~-----------~~~~A~~~~~~~~~~~~~p~~~~~~  335 (542)
                      ..|           .+++|.+.|++..+.  .|+...|.
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~  123 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYL  123 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHH
Confidence            322           235555555555554  44444443

>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=97.64  E-value=7.4e-05  Score=58.38  Aligned_cols=61  Identities=10%  Similarity=-0.073  Sum_probs=37.1

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-----------hHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009143          380 GDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGD-----------LSNAFSIRDLMLSFGVSSNVFTFNALI  443 (542)
Q Consensus       380 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-----------~~~A~~~~~~m~~~~~~p~~~~~~~ll  443 (542)
                      +.+++|+..++++++.++. +..+|..+..+|...|+           +++|.+.|++..+  +.|+...|...+
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L  126 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSL  126 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHH
Confidence            3456778888888776655 67777777777765543           3555555555554  245544444444

>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=97.61  E-value=5.5e-05  Score=65.72  Aligned_cols=122  Identities=11%  Similarity=-0.019  Sum_probs=61.0

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHH
Q 009143          234 CKKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDIS  313 (542)
Q Consensus       234 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  313 (542)
                      .+.|++++|+..+++.++..|    .+...+..+...++..|++++|.+.++...+.. +-+...+..+...+...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~~~P----~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASP----KDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccH
Confidence            355667777777777776665    666667777777777777777777776666553 223333433333332222222


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          314 SAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKT  360 (542)
Q Consensus       314 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  360 (542)
                      ++..........+-+++...+......+...|+.++|...+..+.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            21111110000011112223333344455566666666666665543

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.53  E-value=8.4e-05  Score=64.52  Aligned_cols=51  Identities=18%  Similarity=0.288  Sum_probs=27.7

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHH
Q 009143          165 KIGDLEKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       165 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  216 (542)
                      +.|++++|++.+++.++..| .|...+..+...++..|++++|...++...+
T Consensus         8 ~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34555555555555555544 2455555555555555555555555555544

>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=97.25  E-value=0.0022  Score=50.36  Aligned_cols=90  Identities=13%  Similarity=0.010  Sum_probs=63.8

Q ss_pred             ccccCChHHHHHHHHHHHhCC-CCC----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhHc-----CCCCC----
Q 009143          451 SCNLGHIHLALQLYDEMLRRG-ITP----------DIITYTELIKGHCARGNMKEAEEVFAKIQTL-----GLAID----  510 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~g-~~p----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~~~----  510 (542)
                      +...|++++|+..|++.++.. -.|          ...+|+.+..+|...|++++|...+++..+.     ...++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            334577777777777776510 011          1357888999999999999999999887752     11122    


Q ss_pred             -hhHHHHHHHHHHhcCChhHHHHHHHHHhhc
Q 009143          511 -HIPFRILKKRYRRMKESDKARDIHQKWLLR  540 (542)
Q Consensus       511 -~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  540 (542)
                       ...+..+..+|...|++++|.+.|+++++.
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence             224667888999999999999999998764

>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=97.17  E-value=0.0036  Score=49.08  Aligned_cols=92  Identities=13%  Similarity=0.009  Sum_probs=41.9

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCC--------CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC---
Q 009143          232 ALCKKGLLGDAVKFLGEVLADDDGKAT--------SDVITSTILMDSYFKNGDKFQALALWNDMFQK-----NIQTD---  295 (542)
Q Consensus       232 ~~~~~g~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~---  295 (542)
                      .+.+.|++++|++.|++.++..+....        .....|+.+..+|.+.|++++|...+++....     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            344455555665555555543221100        01234555555555556555555555554431     00111   


Q ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 009143          296 --IVAYNVLINGFCLNGDISSAFAYFCQML  323 (542)
Q Consensus       296 --~~~~~~li~~~~~~~~~~~A~~~~~~~~  323 (542)
                        ...++.+..+|...|++++|++.|++..
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              1123444455555555555555555443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.0027  Score=44.87  Aligned_cols=55  Identities=16%  Similarity=0.108  Sum_probs=30.2

Q ss_pred             ccccCChHHHHHHHHHHHhC-----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHc
Q 009143          451 SCNLGHIHLALQLYDEMLRR-----GITPD-IITYTELIKGHCARGNMKEAEEVFAKIQTL  505 (542)
Q Consensus       451 ~~~~g~~~~A~~~~~~~~~~-----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  505 (542)
                      +.+.|++++|...|++..+.     ...++ ..++..+..++.+.|++++|...++++.+.
T Consensus        15 ~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          15 AYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            44556666666666655541     11111 245556666666666666666666666654

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.0035  Score=44.24  Aligned_cols=63  Identities=16%  Similarity=0.129  Sum_probs=27.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCC---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 009143          228 ILVHALCKKGLLGDAVKFLGEVLADDDG---KATSDVITSTILMDSYFKNGDKFQALALWNDMFQK  290 (542)
Q Consensus       228 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  290 (542)
                      .+...+.+.|++++|...|+++++..+.   .......+++.+..++.+.|++++|++.++++++.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3444445555555555555544432110   00012334444555555555555555555555444

>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=96.16  E-value=0.1  Score=38.93  Aligned_cols=16  Identities=19%  Similarity=0.212  Sum_probs=8.0

Q ss_pred             CHHHHHHHHHHHHHCC
Q 009143          276 DKFQALALWNDMFQKN  291 (542)
Q Consensus       276 ~~~~a~~~~~~~~~~~  291 (542)
                      |+++|.++|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            3445555555555444

>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=96.08  E-value=0.11  Score=38.82  Aligned_cols=110  Identities=9%  Similarity=0.032  Sum_probs=58.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHH
Q 009143          311 DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCI----HGDIVKAR  386 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~  386 (542)
                      ++++|+++|++..+.|..   .....|..  ....+.++|.+++....+.|   ++.....|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            566777777777766522   22222221  22345666666666666654   33444444444443    34566666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhCC
Q 009143          387 EFLLSMLEKSVVPEPHIWNVIIDGYGR----CGDLSNAFSIRDLMLSFG  431 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  431 (542)
                      ++|++..+.+   ++.....|...|..    ..+.++|.+.|++..+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            6666666654   34444445444443    335556666666555543

>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=94.62  E-value=0.18  Score=36.51  Aligned_cols=67  Identities=9%  Similarity=0.007  Sum_probs=38.0

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHhHcCCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 009143          474 PDIITYTELIKGHCARGN---MKEAEEVFAKIQTLGLAID-HIPFRILKKRYRRMKESDKARDIHQKWLLRN  541 (542)
Q Consensus       474 p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  541 (542)
                      |...|--.+.+++.+..+   .++++.++++..+.+. .+ ...+-.|.-+|.+.|++++|.++++++|+.+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            444454455666665433   3466666666665421 12 2344556666677777777777777766543

>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=93.24  E-value=0.96  Score=32.38  Aligned_cols=61  Identities=11%  Similarity=0.073  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHh
Q 009143          477 ITYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKWL  538 (542)
Q Consensus       477 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  538 (542)
                      ...+..++.+..+|+-+.-.++...+.+. -+|++.....+..+|.+-|...++.+++.++-
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~AC  147 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEAC  147 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            33444455555555555555555554442 23455555555555555555555555555543

>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=93.12  E-value=3.1  Score=37.92  Aligned_cols=202  Identities=10%  Similarity=-0.026  Sum_probs=112.2

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHH----HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 009143          310 GDISSAFAYFCQMLKRGFLPDVITYNTLLN----CLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKA  385 (542)
Q Consensus       310 ~~~~~A~~~~~~~~~~~~~p~~~~~~~li~----~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  385 (542)
                      .+.+.+..++....... ..+..-...+-.    .....+..+.+..++......+  .+.......+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            46677777777665542 222222222222    2223455667777776665543  2344444445555566788888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHH
Q 009143          386 REFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNAFSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYD  465 (542)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~  465 (542)
                      ...+..+..... ......--+..++...|+.++|...|.....   .++   |-.++.+-      +.|..-.      
T Consensus       305 ~~~~~~l~~~~~-~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~~---fYG~LAa~------~Lg~~~~------  365 (450)
T d1qsaa1         305 NTWLARLPMEAK-EKDEWRYWQADLLLERGREAEAKEILHQLMQ---QRG---FYPMVAAQ------RIGEEYE------  365 (450)
T ss_dssp             HHHHHHSCTTGG-GSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCS---HHHHHHHH------HTTCCCC------
T ss_pred             HHHHHhcCcccc-cHHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CCC---hHHHHHHH------HcCCCCC------
Confidence            877777643221 2334444566778888888888888888764   233   33333321      1111000      


Q ss_pred             HHHhCCC--CCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHhHcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 009143          466 EMLRRGI--TPDII----TYTELIKGHCARGNMKEAEEVFAKIQTLGLAIDHIPFRILKKRYRRMKESDKARDIHQKW  537 (542)
Q Consensus       466 ~~~~~g~--~p~~~----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  537 (542)
                       +-...+  .+...    .-..-+..+...|...+|...|..+...   .+......+.....+.|+++.|+....++
T Consensus       366 -~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         366 -LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             -CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             -CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence             000000  00000    0112345667889999998888877653   24556667778888889999888877665

>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=92.39  E-value=0.88  Score=32.74  Aligned_cols=47  Identities=11%  Similarity=0.132  Sum_probs=21.9

Q ss_pred             hHHHHHHHHHhhCCCCCCHHhHHHHHHHHHHcCChhhHHHHHHHHHH
Q 009143          170 EKADHVIREMSEMRPSPNCATYNAFITGYCRVNELDKALHLFSTMAN  216 (542)
Q Consensus       170 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  216 (542)
                      ++++.+|+++.+.++......+-.|.-+|.+.|++++|...++.+.+
T Consensus        55 ~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          55 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            34555555554433211123334444445555555555555555554

>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=91.72  E-value=1.6  Score=31.25  Aligned_cols=139  Identities=17%  Similarity=0.086  Sum_probs=70.1

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHH
Q 009143          235 KKGLLGDAVKFLGEVLADDDGKATSDVITSTILMDSYFKNGDKFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISS  314 (542)
Q Consensus       235 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  314 (542)
                      -.|.+++..+++.+....      .+..-||-.+--....-+-+...++++.+-..   .|.          ...++...
T Consensus        14 ldG~ve~Gveii~k~~~s------s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~   74 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS------STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKS   74 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH------SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHH
T ss_pred             HhhhHHhHHHHHHHHccc------CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHH
Confidence            456666666666666553      23334444444444445555555555554332   111          11222222


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 009143          315 AFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQGLCIHGDIVKAREFLLSMLE  394 (542)
Q Consensus       315 A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  394 (542)
                      ...-+-.+     ..+...+...++.+...|+-|+-.++++.+.+.+ ++++...-.+..+|-+.|...++.+++.+.-+
T Consensus        75 vv~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          75 VVECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             HHHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            22222211     1123334445555666666666666666655532 45566666666666666666666666666666


Q ss_pred             CCCC
Q 009143          395 KSVV  398 (542)
Q Consensus       395 ~~~~  398 (542)
                      +|.+
T Consensus       149 ~G~K  152 (161)
T d1wy6a1         149 KGEK  152 (161)
T ss_dssp             TTCH
T ss_pred             HhHH
Confidence            6543

>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=85.25  E-value=13  Score=33.49  Aligned_cols=171  Identities=8%  Similarity=-0.009  Sum_probs=95.6

Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH----HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 009143          345 GKLDEASHFYGVLSKTGVAPDQISYKTIIQGL----CIHGDIVKAREFLLSMLEKSVVPEPHIWNVIIDGYGRCGDLSNA  420 (542)
Q Consensus       345 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~----~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  420 (542)
                      .+.+.|..++........ .+..-...+-...    ...+..+.+...+......+.  +.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHH
Confidence            577888888887765432 2222222222222    234666778888877766543  444444455556678899999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHhhcccccccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 009143          421 FSIRDLMLSFGVSSNVFTFNALILAETRGASCNLGHIHLALQLYDEMLRRGITPDIITYTELIKGHCARGNMKEAEEVFA  500 (542)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  500 (542)
                      ...+..|...........|..--      .+...|+.+.|...|..+..   .++  -|..|..  .+.|..-.      
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~gR------a~~~~G~~~~A~~~~~~~a~---~~~--fYG~LAa--~~Lg~~~~------  365 (450)
T d1qsaa1         305 NTWLARLPMEAKEKDEWRYWQAD------LLLERGREAEAKEILHQLMQ---QRG--FYPMVAA--QRIGEEYE------  365 (450)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHH------HHHHTTCHHHHHHHHHHHHT---SCS--HHHHHHH--HHTTCCCC------
T ss_pred             HHHHHhcCcccccHHHHHHHHHH------HHHHcCChhhHHHHHHHHhc---CCC--hHHHHHH--HHcCCCCC------
Confidence            99998876532222222333322      15577999999999999875   233  3443322  22222100      


Q ss_pred             HHhHcCCC--CCh-----hHHHHHHHHHHhcCChhHHHHHHHHHhh
Q 009143          501 KIQTLGLA--IDH-----IPFRILKKRYRRMKESDKARDIHQKWLL  539 (542)
Q Consensus       501 ~m~~~g~~--~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~l~  539 (542)
                       +....+.  ++.     ..+ .-+..+...|+..+|...|..++.
T Consensus       366 -~~~~~~~~~~~~~~~~~~~~-~ra~~L~~~g~~~~A~~e~~~l~~  409 (450)
T d1qsaa1         366 -LKIDKAPQNVDSALTQGPEM-ARVRELMYWNLDNTARSEWANLVK  409 (450)
T ss_dssp             -CCCCCCCSCCCCHHHHSHHH-HHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             -CCcCCCCccHHHhhhcChHH-HHHHHHHHcCCchHHHHHHHHHHh
Confidence             0000000  000     111 234567788999999988877653

>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=82.27  E-value=5.4  Score=26.86  Aligned_cols=49  Identities=8%  Similarity=0.051  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Q 009143          277 KFQALALWNDMFQKNIQTDIVAYNVLINGFCLNGDISSAFAYFCQMLKR  325 (542)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  325 (542)
                      .-++.+-++.+...+..|++....+.+++|.+.+++..|.++|+-...+
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3345555555555555666666666666666666666666666655543

>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=80.39  E-value=6.4  Score=26.49  Aligned_cols=63  Identities=14%  Similarity=0.202  Sum_probs=39.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 009143          311 DISSAFAYFCQMLKRGFLPDVITYNTLLNCLCKQGKLDEASHFYGVLSKTGVAPDQISYKTIIQ  374 (542)
Q Consensus       311 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  374 (542)
                      +.-++.+-+..+....+.|++....+.+++|.+.+++..|.++++-++.. +.++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            34455556666666667777777777777777777777777777766543 2223445555443